-- dump date 20140619_044238 -- class Genbank::misc_feature -- table misc_feature_note -- id note 645462000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 645462000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 645462000003 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 645462000004 Walker A motif; other site 645462000005 ATP binding site [chemical binding]; other site 645462000006 Walker B motif; other site 645462000007 arginine finger; other site 645462000008 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 645462000009 DnaA box-binding interface [nucleotide binding]; other site 645462000010 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 645462000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 645462000012 putative DNA binding surface [nucleotide binding]; other site 645462000013 dimer interface [polypeptide binding]; other site 645462000014 beta-clamp/clamp loader binding surface; other site 645462000015 beta-clamp/translesion DNA polymerase binding surface; other site 645462000016 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 645462000017 RNA binding surface [nucleotide binding]; other site 645462000018 recombination protein F; Reviewed; Region: recF; PRK00064 645462000019 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 645462000020 Walker A/P-loop; other site 645462000021 ATP binding site [chemical binding]; other site 645462000022 Q-loop/lid; other site 645462000023 ABC transporter signature motif; other site 645462000024 Walker B; other site 645462000025 D-loop; other site 645462000026 H-loop/switch region; other site 645462000027 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 645462000028 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 645462000029 ATP binding site [chemical binding]; other site 645462000030 Mg2+ binding site [ion binding]; other site 645462000031 G-X-G motif; other site 645462000032 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 645462000033 anchoring element; other site 645462000034 dimer interface [polypeptide binding]; other site 645462000035 ATP binding site [chemical binding]; other site 645462000036 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 645462000037 active site 645462000038 putative metal-binding site [ion binding]; other site 645462000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 645462000040 DNA gyrase subunit A; Validated; Region: PRK05560 645462000041 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 645462000042 CAP-like domain; other site 645462000043 active site 645462000044 primary dimer interface [polypeptide binding]; other site 645462000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 645462000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 645462000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 645462000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 645462000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 645462000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 645462000051 YtxH-like protein; Region: YtxH; pfam12732 645462000052 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 645462000053 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 645462000054 anti sigma factor interaction site; other site 645462000055 regulatory phosphorylation site [posttranslational modification]; other site 645462000056 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 645462000057 ATP binding site [chemical binding]; other site 645462000058 Mg2+ binding site [ion binding]; other site 645462000059 G-X-G motif; other site 645462000060 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 645462000061 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 645462000062 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 645462000063 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 645462000064 DNA binding residues [nucleotide binding] 645462000065 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 645462000066 HTH domain; Region: HTH_11; pfam08279 645462000067 3H domain; Region: 3H; pfam02829 645462000068 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 645462000069 Conserved TM helix; Region: TM_helix; pfam05552 645462000070 Mechanosensitive ion channel; Region: MS_channel; pfam00924 645462000071 seryl-tRNA synthetase; Provisional; Region: PRK05431 645462000072 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 645462000073 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 645462000074 dimer interface [polypeptide binding]; other site 645462000075 active site 645462000076 motif 1; other site 645462000077 motif 2; other site 645462000078 motif 3; other site 645462000079 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 645462000080 nucleoside/Zn binding site; other site 645462000081 dimer interface [polypeptide binding]; other site 645462000082 catalytic motif [active] 645462000083 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 645462000084 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 645462000085 Walker A motif; other site 645462000086 ATP binding site [chemical binding]; other site 645462000087 Walker B motif; other site 645462000088 arginine finger; other site 645462000089 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 645462000090 hypothetical protein; Validated; Region: PRK00153 645462000091 recombination protein RecR; Reviewed; Region: recR; PRK00076 645462000092 RecR protein; Region: RecR; pfam02132 645462000093 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 645462000094 putative active site [active] 645462000095 putative metal-binding site [ion binding]; other site 645462000096 tetramer interface [polypeptide binding]; other site 645462000097 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 645462000098 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 645462000099 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 645462000100 pyruvate carboxylase; Reviewed; Region: PRK12999 645462000101 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 645462000102 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 645462000103 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 645462000104 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 645462000105 active site 645462000106 catalytic residues [active] 645462000107 metal binding site [ion binding]; metal-binding site 645462000108 homodimer binding site [polypeptide binding]; other site 645462000109 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 645462000110 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 645462000111 carboxyltransferase (CT) interaction site; other site 645462000112 biotinylation site [posttranslational modification]; other site 645462000113 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 645462000114 elongation factor G; Reviewed; Region: PRK12740 645462000115 G1 box; other site 645462000116 GTP/Mg2+ binding site [chemical binding]; other site 645462000117 G2 box; other site 645462000118 Switch I region; other site 645462000119 G3 box; other site 645462000120 Switch II region; other site 645462000121 G4 box; other site 645462000122 G5 box; other site 645462000123 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 645462000124 Elongation Factor G, domain II; Region: EFG_II; pfam14492 645462000125 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 645462000126 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 645462000127 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 645462000128 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 645462000129 UvrB/uvrC motif; Region: UVR; pfam02151 645462000130 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 645462000131 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 645462000132 ADP binding site [chemical binding]; other site 645462000133 phosphagen binding site; other site 645462000134 substrate specificity loop; other site 645462000135 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 645462000136 Clp amino terminal domain; Region: Clp_N; pfam02861 645462000137 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 645462000138 Walker A motif; other site 645462000139 ATP binding site [chemical binding]; other site 645462000140 Walker B motif; other site 645462000141 arginine finger; other site 645462000142 UvrB/uvrC motif; Region: UVR; pfam02151 645462000143 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 645462000144 Walker A motif; other site 645462000145 ATP binding site [chemical binding]; other site 645462000146 Walker B motif; other site 645462000147 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 645462000148 DNA repair protein RadA; Provisional; Region: PRK11823 645462000149 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 645462000150 Walker A motif/ATP binding site; other site 645462000151 ATP binding site [chemical binding]; other site 645462000152 Walker B motif; other site 645462000153 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 645462000154 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 645462000155 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 645462000156 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 645462000157 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 645462000158 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 645462000159 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 645462000160 putative active site [active] 645462000161 Cupin domain; Region: Cupin_2; cl17218 645462000162 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 645462000163 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 645462000164 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 645462000165 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 645462000166 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 645462000167 inhibitor binding site; inhibition site 645462000168 active site 645462000169 MFS/sugar transport protein; Region: MFS_2; pfam13347 645462000170 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 645462000171 putative substrate translocation pore; other site 645462000172 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 645462000173 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 645462000174 non-specific DNA interactions [nucleotide binding]; other site 645462000175 DNA binding site [nucleotide binding] 645462000176 sequence specific DNA binding site [nucleotide binding]; other site 645462000177 putative cAMP binding site [chemical binding]; other site 645462000178 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 645462000179 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 645462000180 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 645462000181 tetramer interface [polypeptide binding]; other site 645462000182 TPP-binding site [chemical binding]; other site 645462000183 heterodimer interface [polypeptide binding]; other site 645462000184 phosphorylation loop region [posttranslational modification] 645462000185 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 645462000186 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 645462000187 alpha subunit interface [polypeptide binding]; other site 645462000188 TPP binding site [chemical binding]; other site 645462000189 heterodimer interface [polypeptide binding]; other site 645462000190 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 645462000191 dihydrolipoamide acetyltransferase; Provisional; Region: PRK14843 645462000192 e3 binding domain; Region: E3_binding; pfam02817 645462000193 e3 binding domain; Region: E3_binding; pfam02817 645462000194 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 645462000195 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 645462000196 E3 interaction surface; other site 645462000197 lipoyl attachment site [posttranslational modification]; other site 645462000198 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 645462000199 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 645462000200 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 645462000201 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 645462000202 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 645462000203 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 645462000204 Walker A motif; other site 645462000205 ATP binding site [chemical binding]; other site 645462000206 Walker B motif; other site 645462000207 arginine finger; other site 645462000208 PRD domain; Region: PRD; pfam00874 645462000209 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 645462000210 active pocket/dimerization site; other site 645462000211 active site 645462000212 phosphorylation site [posttranslational modification] 645462000213 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 645462000214 active site 645462000215 phosphorylation site [posttranslational modification] 645462000216 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 645462000217 active site 645462000218 phosphorylation site [posttranslational modification] 645462000219 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 645462000220 active site 645462000221 P-loop; other site 645462000222 phosphorylation site [posttranslational modification] 645462000223 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 645462000224 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 645462000225 intersubunit interface [polypeptide binding]; other site 645462000226 active site 645462000227 Zn2+ binding site [ion binding]; other site 645462000228 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 645462000229 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 645462000230 substrate binding site; other site 645462000231 dimer interface; other site 645462000232 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 645462000233 homotrimer interaction site [polypeptide binding]; other site 645462000234 zinc binding site [ion binding]; other site 645462000235 CDP-binding sites; other site 645462000236 prolyl-tRNA synthetase; Provisional; Region: PRK09194 645462000237 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 645462000238 dimer interface [polypeptide binding]; other site 645462000239 motif 1; other site 645462000240 active site 645462000241 motif 2; other site 645462000242 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 645462000243 putative deacylase active site [active] 645462000244 motif 3; other site 645462000245 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 645462000246 anticodon binding site; other site 645462000247 prolyl-tRNA synthetase; Provisional; Region: PRK08661 645462000248 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 645462000249 dimer interface [polypeptide binding]; other site 645462000250 motif 1; other site 645462000251 active site 645462000252 motif 2; other site 645462000253 motif 3; other site 645462000254 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 645462000255 anticodon binding site; other site 645462000256 zinc-binding site [ion binding]; other site 645462000257 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 645462000258 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 645462000259 active site 645462000260 HIGH motif; other site 645462000261 KMSKS motif; other site 645462000262 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 645462000263 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 645462000264 active site 645462000265 HIGH motif; other site 645462000266 KMSKS motif; other site 645462000267 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 645462000268 tRNA binding surface [nucleotide binding]; other site 645462000269 anticodon binding site; other site 645462000270 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 645462000271 active site 645462000272 metal binding site [ion binding]; metal-binding site 645462000273 dimerization interface [polypeptide binding]; other site 645462000274 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 645462000275 dimerization interface [polypeptide binding]; other site 645462000276 active site 645462000277 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 645462000278 folate binding site [chemical binding]; other site 645462000279 NADP+ binding site [chemical binding]; other site 645462000280 SIR2-like domain; Region: SIR2_2; pfam13289 645462000281 ThiC family; Region: ThiC; cl08031 645462000282 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 645462000283 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 645462000284 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 645462000285 YacP-like NYN domain; Region: NYN_YacP; pfam05991 645462000286 RNA polymerase factor sigma-70; Validated; Region: PRK08295 645462000287 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 645462000288 elongation factor Tu; Reviewed; Region: PRK00049 645462000289 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 645462000290 G1 box; other site 645462000291 GEF interaction site [polypeptide binding]; other site 645462000292 GTP/Mg2+ binding site [chemical binding]; other site 645462000293 Switch I region; other site 645462000294 G2 box; other site 645462000295 G3 box; other site 645462000296 Switch II region; other site 645462000297 G4 box; other site 645462000298 G5 box; other site 645462000299 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 645462000300 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 645462000301 Antibiotic Binding Site [chemical binding]; other site 645462000302 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 645462000303 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 645462000304 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 645462000305 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 645462000306 putative homodimer interface [polypeptide binding]; other site 645462000307 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 645462000308 heterodimer interface [polypeptide binding]; other site 645462000309 homodimer interface [polypeptide binding]; other site 645462000310 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 645462000311 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 645462000312 23S rRNA interface [nucleotide binding]; other site 645462000313 L7/L12 interface [polypeptide binding]; other site 645462000314 putative thiostrepton binding site; other site 645462000315 L25 interface [polypeptide binding]; other site 645462000316 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 645462000317 mRNA/rRNA interface [nucleotide binding]; other site 645462000318 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 645462000319 23S rRNA interface [nucleotide binding]; other site 645462000320 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 645462000321 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 645462000322 core dimer interface [polypeptide binding]; other site 645462000323 peripheral dimer interface [polypeptide binding]; other site 645462000324 L10 interface [polypeptide binding]; other site 645462000325 L11 interface [polypeptide binding]; other site 645462000326 putative EF-Tu interaction site [polypeptide binding]; other site 645462000327 putative EF-G interaction site [polypeptide binding]; other site 645462000328 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 645462000329 classical (c) SDRs; Region: SDR_c; cd05233 645462000330 NAD(P) binding site [chemical binding]; other site 645462000331 active site 645462000332 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 645462000333 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 645462000334 RPB12 interaction site [polypeptide binding]; other site 645462000335 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl19478 645462000336 RPB1 interaction site [polypeptide binding]; other site 645462000337 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 645462000338 RPB10 interaction site [polypeptide binding]; other site 645462000339 RPB11 interaction site [polypeptide binding]; other site 645462000340 RPB3 interaction site [polypeptide binding]; other site 645462000341 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 645462000342 Largest subunit (beta') of bacterial DNA-dependent RNA polymerase (RNAP), N-terminal domain; Region: RNAP_beta'_N; cd01609 645462000343 beta and beta' interface [polypeptide binding]; other site 645462000344 beta' and sigma factor interface [polypeptide binding]; other site 645462000345 Zn-binding [ion binding]; other site 645462000346 active site region [active] 645462000347 catalytic site [active] 645462000348 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 645462000349 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 645462000350 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 645462000351 G-loop; other site 645462000352 DNA binding site [nucleotide binding] 645462000353 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 645462000354 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 645462000355 S17 interaction site [polypeptide binding]; other site 645462000356 S8 interaction site; other site 645462000357 16S rRNA interaction site [nucleotide binding]; other site 645462000358 streptomycin interaction site [chemical binding]; other site 645462000359 23S rRNA interaction site [nucleotide binding]; other site 645462000360 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 645462000361 30S ribosomal protein S7; Validated; Region: PRK05302 645462000362 elongation factor G; Reviewed; Region: PRK00007 645462000363 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 645462000364 G1 box; other site 645462000365 putative GEF interaction site [polypeptide binding]; other site 645462000366 GTP/Mg2+ binding site [chemical binding]; other site 645462000367 Switch I region; other site 645462000368 G2 box; other site 645462000369 G3 box; other site 645462000370 Switch II region; other site 645462000371 G4 box; other site 645462000372 G5 box; other site 645462000373 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 645462000374 Elongation Factor G, domain II; Region: EFG_II; pfam14492 645462000375 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 645462000376 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 645462000377 elongation factor Tu; Reviewed; Region: PRK00049 645462000378 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 645462000379 G1 box; other site 645462000380 GEF interaction site [polypeptide binding]; other site 645462000381 GTP/Mg2+ binding site [chemical binding]; other site 645462000382 Switch I region; other site 645462000383 G2 box; other site 645462000384 G3 box; other site 645462000385 Switch II region; other site 645462000386 G4 box; other site 645462000387 G5 box; other site 645462000388 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 645462000389 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 645462000390 Antibiotic Binding Site [chemical binding]; other site 645462000391 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 645462000392 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 645462000393 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 645462000394 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 645462000395 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 645462000396 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 645462000397 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 645462000398 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 645462000399 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 645462000400 putative translocon binding site; other site 645462000401 protein-rRNA interface [nucleotide binding]; other site 645462000402 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 645462000403 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 645462000404 G-X-X-G motif; other site 645462000405 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 645462000406 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 645462000407 23S rRNA interface [nucleotide binding]; other site 645462000408 5S rRNA interface [nucleotide binding]; other site 645462000409 putative antibiotic binding site [chemical binding]; other site 645462000410 L25 interface [polypeptide binding]; other site 645462000411 L27 interface [polypeptide binding]; other site 645462000412 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 645462000413 23S rRNA interface [nucleotide binding]; other site 645462000414 putative translocon interaction site; other site 645462000415 signal recognition particle (SRP54) interaction site; other site 645462000416 L23 interface [polypeptide binding]; other site 645462000417 trigger factor interaction site; other site 645462000418 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 645462000419 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 645462000420 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 645462000421 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 645462000422 RNA binding site [nucleotide binding]; other site 645462000423 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 645462000424 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 645462000425 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 645462000426 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 645462000427 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 645462000428 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 645462000429 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 645462000430 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 645462000431 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 645462000432 5S rRNA interface [nucleotide binding]; other site 645462000433 L27 interface [polypeptide binding]; other site 645462000434 23S rRNA interface [nucleotide binding]; other site 645462000435 L5 interface [polypeptide binding]; other site 645462000436 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 645462000437 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 645462000438 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 645462000439 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 645462000440 23S rRNA binding site [nucleotide binding]; other site 645462000441 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 645462000442 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 645462000443 SecY translocase; Region: SecY; pfam00344 645462000444 adenylate kinase; Reviewed; Region: adk; PRK00279 645462000445 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 645462000446 AMP-binding site [chemical binding]; other site 645462000447 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 645462000448 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 645462000449 active site 645462000450 KOW motif of Ribosomal Protein L14; Region: KOW_RPL14; cd06088 645462000451 RNA binding site [nucleotide binding]; other site 645462000452 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 645462000453 rRNA binding site [nucleotide binding]; other site 645462000454 predicted 30S ribosome binding site; other site 645462000455 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 645462000456 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 645462000457 30S ribosomal protein S11; Validated; Region: PRK05309 645462000458 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 645462000459 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 645462000460 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 645462000461 RNA binding surface [nucleotide binding]; other site 645462000462 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 645462000463 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 645462000464 alphaNTD - beta interaction site [polypeptide binding]; other site 645462000465 alphaNTD homodimer interface [polypeptide binding]; other site 645462000466 alphaNTD - beta' interaction site [polypeptide binding]; other site 645462000467 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 645462000468 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 645462000469 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 645462000470 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 645462000471 Walker A/P-loop; other site 645462000472 ATP binding site [chemical binding]; other site 645462000473 Q-loop/lid; other site 645462000474 ABC transporter signature motif; other site 645462000475 Walker B; other site 645462000476 D-loop; other site 645462000477 H-loop/switch region; other site 645462000478 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 645462000479 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 645462000480 Walker A/P-loop; other site 645462000481 ATP binding site [chemical binding]; other site 645462000482 Q-loop/lid; other site 645462000483 ABC transporter signature motif; other site 645462000484 Walker B; other site 645462000485 D-loop; other site 645462000486 H-loop/switch region; other site 645462000487 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 645462000488 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 645462000489 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 645462000490 dimerization interface 3.5A [polypeptide binding]; other site 645462000491 active site 645462000492 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 645462000493 23S rRNA interface [nucleotide binding]; other site 645462000494 L3 interface [polypeptide binding]; other site 645462000495 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 645462000496 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 645462000497 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 645462000498 active site 645462000499 metal binding site [ion binding]; metal-binding site 645462000500 aspartate aminotransferase; Provisional; Region: PRK05764 645462000501 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 645462000502 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462000503 homodimer interface [polypeptide binding]; other site 645462000504 catalytic residue [active] 645462000505 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 645462000506 ATP cone domain; Region: ATP-cone; pfam03477 645462000507 Class III ribonucleotide reductase; Region: RNR_III; cd01675 645462000508 effector binding site; other site 645462000509 active site 645462000510 Zn binding site [ion binding]; other site 645462000511 glycine loop; other site 645462000512 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 645462000513 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 645462000514 FeS/SAM binding site; other site 645462000515 Uncharacterized conserved protein [Function unknown]; Region: COG1624 645462000516 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 645462000517 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 645462000518 YbbR-like protein; Region: YbbR; pfam07949 645462000519 phosphate butyryltransferase; Validated; Region: PRK05805 645462000520 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 645462000521 nucleotide binding site [chemical binding]; other site 645462000522 Acetokinase family; Region: Acetate_kinase; cl17229 645462000523 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 645462000524 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 645462000525 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 645462000526 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 645462000527 dimer interface [polypeptide binding]; other site 645462000528 PYR/PP interface [polypeptide binding]; other site 645462000529 TPP binding site [chemical binding]; other site 645462000530 substrate binding site [chemical binding]; other site 645462000531 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 645462000532 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 645462000533 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 645462000534 TPP-binding site [chemical binding]; other site 645462000535 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 645462000536 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 645462000537 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 645462000538 active site 645462000539 substrate binding site [chemical binding]; other site 645462000540 metal binding site [ion binding]; metal-binding site 645462000541 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 645462000542 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 645462000543 glutaminase active site [active] 645462000544 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 645462000545 dimer interface [polypeptide binding]; other site 645462000546 active site 645462000547 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 645462000548 dimer interface [polypeptide binding]; other site 645462000549 active site 645462000550 Rhodanese-like domain; Region: Rhodanese; pfam00581 645462000551 active site residue [active] 645462000552 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 645462000553 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 645462000554 active site residue [active] 645462000555 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 645462000556 active site residue [active] 645462000557 Protein of unknown function (DUF1779); Region: DUF1779; pfam08680 645462000558 EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase); Region: EPSP_synthase; pfam00275 645462000559 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 645462000560 hinge; other site 645462000561 active site 645462000562 Stage II sporulation protein; Region: SpoIID; pfam08486 645462000563 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 645462000564 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 645462000565 Peptidase family M23; Region: Peptidase_M23; pfam01551 645462000566 Stage III sporulation protein D; Region: SpoIIID; pfam12116 645462000567 rod shape-determining protein Mbl; Provisional; Region: PRK13928 645462000568 MreB and similar proteins; Region: MreB_like; cd10225 645462000569 nucleotide binding site [chemical binding]; other site 645462000570 Mg binding site [ion binding]; other site 645462000571 putative protofilament interaction site [polypeptide binding]; other site 645462000572 RodZ interaction site [polypeptide binding]; other site 645462000573 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 645462000574 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 645462000575 S-adenosylmethionine synthetase; Validated; Region: PRK05250 645462000576 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 645462000577 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 645462000578 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 645462000579 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 645462000580 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 645462000581 AAA domain; Region: AAA_30; pfam13604 645462000582 Family description; Region: UvrD_C_2; pfam13538 645462000583 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 645462000584 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 645462000585 active site 645462000586 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 645462000587 PRD domain; Region: PRD; pfam00874 645462000588 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 645462000589 active site 645462000590 P-loop; other site 645462000591 phosphorylation site [posttranslational modification] 645462000592 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 645462000593 active site 645462000594 phosphorylation site [posttranslational modification] 645462000595 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 645462000596 methionine cluster; other site 645462000597 active site 645462000598 phosphorylation site [posttranslational modification] 645462000599 metal binding site [ion binding]; metal-binding site 645462000600 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 645462000601 active site 645462000602 P-loop; other site 645462000603 phosphorylation site [posttranslational modification] 645462000604 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 645462000605 Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); Region: GRDB; cl19416 645462000606 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 645462000607 active site 645462000608 dimer interface [polypeptide binding]; other site 645462000609 catalytic nucleophile [active] 645462000610 dipeptidase PepV; Reviewed; Region: PRK07318 645462000611 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 645462000612 active site 645462000613 metal binding site [ion binding]; metal-binding site 645462000614 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 645462000615 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 645462000616 30S subunit binding site; other site 645462000617 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 645462000618 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 645462000619 ATP binding site [chemical binding]; other site 645462000620 putative Mg++ binding site [ion binding]; other site 645462000621 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 645462000622 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 645462000623 SEC-C motif; Region: SEC-C; pfam02810 645462000624 peptide chain release factor 2; Validated; Region: prfB; PRK00578 645462000625 PCRF domain; Region: PCRF; pfam03462 645462000626 RF-1 domain; Region: RF-1; pfam00472 645462000627 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 645462000628 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 645462000629 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 645462000630 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 645462000631 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 645462000632 RNA binding site [nucleotide binding]; other site 645462000633 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 645462000634 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 645462000635 active site 645462000636 Predicted membrane protein [Function unknown]; Region: COG3601 645462000637 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 645462000638 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 645462000639 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 645462000640 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 645462000641 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 645462000642 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 645462000643 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 645462000644 Glycoprotease family; Region: Peptidase_M22; pfam00814 645462000645 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 645462000646 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 645462000647 Coenzyme A binding pocket [chemical binding]; other site 645462000648 UGMP family protein; Validated; Region: PRK09604 645462000649 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 645462000650 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 645462000651 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 645462000652 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 645462000653 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 645462000654 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 645462000655 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 645462000656 CAAX protease self-immunity; Region: Abi; pfam02517 645462000657 CAAX protease self-immunity; Region: Abi; pfam02517 645462000658 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 645462000659 active site 645462000660 metal binding site [ion binding]; metal-binding site 645462000661 Uncharacterized protein conserved in bacteria (DUF2316); Region: DUF2316; cl01805 645462000662 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 645462000663 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 645462000664 active site 645462000665 phosphorylation site [posttranslational modification] 645462000666 intermolecular recognition site; other site 645462000667 dimerization interface [polypeptide binding]; other site 645462000668 LytTr DNA-binding domain; Region: LytTR; smart00850 645462000669 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 645462000670 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 645462000671 Walker A/P-loop; other site 645462000672 ATP binding site [chemical binding]; other site 645462000673 Q-loop/lid; other site 645462000674 ABC transporter signature motif; other site 645462000675 Walker B; other site 645462000676 D-loop; other site 645462000677 H-loop/switch region; other site 645462000678 Cys-rich peptide radical SAM maturase CcpM; Region: rSAM_ocin_clost; TIGR04068 645462000679 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 645462000680 FeS/SAM binding site; other site 645462000681 peptide maturation system protein, TIGR04066 family; Region: nat_prod_clost 645462000682 peptide maturation system acyl carrier-related protein; Region: ocin_ACP_rel; TIGR04069 645462000683 amino acid transporter; Region: 2A0306; TIGR00909 645462000684 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 645462000685 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 645462000686 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 645462000687 metal binding site [ion binding]; metal-binding site 645462000688 dimer interface [polypeptide binding]; other site 645462000689 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 645462000690 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 645462000691 Walker A motif; other site 645462000692 ATP binding site [chemical binding]; other site 645462000693 Walker B motif; other site 645462000694 arginine finger; other site 645462000695 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 645462000696 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 645462000697 ligand binding site [chemical binding]; other site 645462000698 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 645462000699 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 645462000700 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 645462000701 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 645462000702 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462000703 ABC transporter; Region: ABC_tran_2; pfam12848 645462000704 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 645462000705 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 645462000706 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 645462000707 CoA binding domain; Region: CoA_binding; pfam02629 645462000708 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 645462000709 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 645462000710 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; pfam01258 645462000711 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 645462000712 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 645462000713 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 645462000714 putative active site [active] 645462000715 putative metal binding site [ion binding]; other site 645462000716 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 645462000717 ACS interaction site; other site 645462000718 CODH interaction site; other site 645462000719 metal cluster binding site [ion binding]; other site 645462000720 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 645462000721 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 645462000722 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 645462000723 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 645462000724 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 645462000725 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 645462000726 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 645462000727 S-adenosylmethionine binding site [chemical binding]; other site 645462000728 AAA domain; Region: AAA_17; cl19128 645462000729 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 645462000730 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 645462000731 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 645462000732 NAD(P) binding site [chemical binding]; other site 645462000733 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 645462000734 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 645462000735 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 645462000736 Bacterial SH3 domain; Region: SH3_3; pfam08239 645462000737 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 645462000738 NlpC/P60 family; Region: NLPC_P60; pfam00877 645462000739 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 645462000740 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 645462000741 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 645462000742 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 645462000743 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 645462000744 FAD binding pocket [chemical binding]; other site 645462000745 FAD binding motif [chemical binding]; other site 645462000746 phosphate binding motif [ion binding]; other site 645462000747 beta-alpha-beta structure motif; other site 645462000748 NAD binding pocket [chemical binding]; other site 645462000749 Iron coordination center [ion binding]; other site 645462000750 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 645462000751 heterodimer interface [polypeptide binding]; other site 645462000752 active site 645462000753 FMN binding site [chemical binding]; other site 645462000754 homodimer interface [polypeptide binding]; other site 645462000755 substrate binding site [chemical binding]; other site 645462000756 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 645462000757 active site 645462000758 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 645462000759 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 645462000760 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 645462000761 Transcriptional regulator [Transcription]; Region: LysR; COG0583 645462000762 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 645462000763 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 645462000764 putative dimerization interface [polypeptide binding]; other site 645462000765 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 645462000766 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 645462000767 8-oxoguanine DNA-glycosylase (ogg); Region: ogg; TIGR00588 645462000768 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 645462000769 minor groove reading motif; other site 645462000770 helix-hairpin-helix signature motif; other site 645462000771 substrate binding pocket [chemical binding]; other site 645462000772 active site 645462000773 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 645462000774 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 645462000775 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 645462000776 putative active site [active] 645462000777 catalytic site [active] 645462000778 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 645462000779 putative active site [active] 645462000780 catalytic site [active] 645462000781 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 645462000782 oligomerisation interface [polypeptide binding]; other site 645462000783 mobile loop; other site 645462000784 roof hairpin; other site 645462000785 chaperonin GroEL; Reviewed; Region: groEL; PRK12850 645462000786 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 645462000787 ring oligomerisation interface [polypeptide binding]; other site 645462000788 ATP/Mg binding site [chemical binding]; other site 645462000789 stacking interactions; other site 645462000790 hinge regions; other site 645462000791 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 645462000792 AIR carboxylase; Region: AIRC; smart01001 645462000793 GMP synthase; Reviewed; Region: guaA; PRK00074 645462000794 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 645462000795 AMP/PPi binding site [chemical binding]; other site 645462000796 candidate oxyanion hole; other site 645462000797 catalytic triad [active] 645462000798 potential glutamine specificity residues [chemical binding]; other site 645462000799 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 645462000800 ATP Binding subdomain [chemical binding]; other site 645462000801 Ligand Binding sites [chemical binding]; other site 645462000802 Dimerization subdomain; other site 645462000803 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 645462000804 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 645462000805 active site 645462000806 metal binding site [ion binding]; metal-binding site 645462000807 Transcriptional regulator [Transcription]; Region: LysR; COG0583 645462000808 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 645462000809 LysR substrate binding domain; Region: LysR_substrate; pfam03466 645462000810 dimerization interface [polypeptide binding]; other site 645462000811 Chromate transporter; Region: Chromate_transp; pfam02417 645462000812 Chromate transporter; Region: Chromate_transp; cl17781 645462000813 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 645462000814 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 645462000815 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462000816 Walker A/P-loop; other site 645462000817 ATP binding site [chemical binding]; other site 645462000818 Q-loop/lid; other site 645462000819 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462000820 ABC transporter signature motif; other site 645462000821 Walker B; other site 645462000822 D-loop; other site 645462000823 H-loop/switch region; other site 645462000824 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462000825 Walker A/P-loop; other site 645462000826 ATP binding site [chemical binding]; other site 645462000827 Q-loop/lid; other site 645462000828 ABC transporter signature motif; other site 645462000829 Walker B; other site 645462000830 D-loop; other site 645462000831 H-loop/switch region; other site 645462000832 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 645462000833 metal binding site [ion binding]; metal-binding site 645462000834 active site 645462000835 I-site; other site 645462000836 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 645462000837 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 645462000838 PRD domain; Region: PRD; pfam00874 645462000839 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 645462000840 active site 645462000841 P-loop; other site 645462000842 phosphorylation site [posttranslational modification] 645462000843 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 645462000844 active site 645462000845 phosphorylation site [posttranslational modification] 645462000846 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 645462000847 active site 645462000848 phosphorylation site [posttranslational modification] 645462000849 putative PTS system fructose-like transporter subunit EIIC; Provisional; Region: PRK10478 645462000850 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 645462000851 active site 645462000852 P-loop; other site 645462000853 phosphorylation site [posttranslational modification] 645462000854 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 645462000855 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 645462000856 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 645462000857 motif II; other site 645462000858 Coat F domain; Region: Coat_F; pfam07875 645462000859 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 645462000860 putative FMN binding site [chemical binding]; other site 645462000861 AIR carboxylase; Region: AIRC; pfam00731 645462000862 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 645462000863 ATP binding site [chemical binding]; other site 645462000864 active site 645462000865 substrate binding site [chemical binding]; other site 645462000866 amidophosphoribosyltransferase; Region: purF; TIGR01134 645462000867 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 645462000868 active site 645462000869 tetramer interface [polypeptide binding]; other site 645462000870 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 645462000871 active site 645462000872 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 645462000873 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 645462000874 dimerization interface [polypeptide binding]; other site 645462000875 putative ATP binding site [chemical binding]; other site 645462000876 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 645462000877 active site 645462000878 substrate binding site [chemical binding]; other site 645462000879 cosubstrate binding site; other site 645462000880 catalytic site [active] 645462000881 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 645462000882 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 645462000883 purine monophosphate binding site [chemical binding]; other site 645462000884 dimer interface [polypeptide binding]; other site 645462000885 putative catalytic residues [active] 645462000886 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 645462000887 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 645462000888 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 645462000889 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 645462000890 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 645462000891 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 645462000892 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 645462000893 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 645462000894 dimerization interface [polypeptide binding]; other site 645462000895 ATP binding site [chemical binding]; other site 645462000896 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 645462000897 dimerization interface [polypeptide binding]; other site 645462000898 ATP binding site [chemical binding]; other site 645462000899 CobB/CobQ-like glutamine amidotransferase domain; Region: GATase_5; pfam13507 645462000900 conserved cys residue [active] 645462000901 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 645462000902 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 645462000903 NADP binding site [chemical binding]; other site 645462000904 active site 645462000905 putative substrate binding site [chemical binding]; other site 645462000906 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 645462000907 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 645462000908 substrate binding site; other site 645462000909 tetramer interface; other site 645462000910 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 645462000911 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 645462000912 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 645462000913 NAD binding site [chemical binding]; other site 645462000914 substrate binding site [chemical binding]; other site 645462000915 homodimer interface [polypeptide binding]; other site 645462000916 active site 645462000917 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 645462000918 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 645462000919 N-acetyl-D-glucosamine binding site [chemical binding]; other site 645462000920 catalytic residue [active] 645462000921 Protein of unknown function (DUF327); Region: DUF327; pfam03885 645462000922 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 645462000923 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 645462000924 FlgN protein; Region: FlgN; pfam05130 645462000925 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 645462000926 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 645462000927 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 645462000928 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 645462000929 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 645462000930 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 645462000931 FliW protein; Region: FliW; pfam02623 645462000932 Global regulator protein family; Region: CsrA; pfam02599 645462000933 Flagellar protein FliS; Region: FliS; cl00654 645462000934 Flagellar protein FliS; Region: FliS; cl00654 645462000935 flagellar capping protein; Validated; Region: fliD; PRK07737 645462000936 Flagellar hook-associated protein 2 N-terminus; Region: FliD_N; pfam02465 645462000937 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 645462000938 Flagellar protein FliT; Region: FliT; pfam05400 645462000939 flagellin; Reviewed; Region: PRK08869 645462000940 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 645462000941 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 645462000942 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 645462000943 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 645462000944 active site 645462000945 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 645462000946 binding surface 645462000947 TPR motif; other site 645462000948 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 645462000949 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 645462000950 Probable Catalytic site; other site 645462000951 metal-binding site 645462000952 Methyltransferase domain; Region: Methyltransf_31; pfam13847 645462000953 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 645462000954 S-adenosylmethionine binding site [chemical binding]; other site 645462000955 Glycosyltransferase like family; Region: Glyco_tranf_2_5; pfam13712 645462000956 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 645462000957 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 645462000958 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 645462000959 Shikimate / quinate 5-dehydrogenase; Region: Shikimate_DH; cl19124 645462000960 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 645462000961 inhibitor-cofactor binding pocket; inhibition site 645462000962 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462000963 catalytic residue [active] 645462000964 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12623 645462000965 flagellar basal body rod protein FlgB; Provisional; Region: flgB; cl19173 645462000966 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 645462000967 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 645462000968 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 645462000969 flagellar hook-basal body protein FliE; Provisional; Region: fliE; PRK12728 645462000970 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 645462000971 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 645462000972 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 645462000973 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 645462000974 FliG N-terminal domain; Region: FliG_N; pfam14842 645462000975 FliG middle domain; Region: FliG_M; pfam14841 645462000976 FliG C-terminal domain; Region: FliG_C; pfam01706 645462000977 Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]; Region: NtpE; COG1390 645462000978 Protein of unknown function (DUF2799); Region: DUF2799; cl19633 645462000979 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 645462000980 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 645462000981 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 645462000982 Walker A motif/ATP binding site; other site 645462000983 Walker B motif; other site 645462000984 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 645462000985 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 645462000986 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 645462000987 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06009 645462000988 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 645462000989 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 645462000990 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 645462000991 Flagellar protein (FlbD); Region: FlbD; pfam06289 645462000992 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 645462000993 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 645462000994 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 645462000995 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 645462000996 ligand binding site [chemical binding]; other site 645462000997 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 645462000998 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 645462000999 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 645462001000 Flagellar biosynthesis pathway, component FliQ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliQ; COG1987 645462001001 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional; Region: PRK12772 645462001002 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 645462001003 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 645462001004 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 645462001005 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 645462001006 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 645462001007 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 645462001008 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 645462001009 P-loop; other site 645462001010 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 645462001011 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 645462001012 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 645462001013 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 645462001014 DNA binding residues [nucleotide binding] 645462001015 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12818 645462001016 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 645462001017 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 645462001018 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12817 645462001019 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 645462001020 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 645462001021 Flagellar motor switch protein FliM; Region: FliM; pfam02154 645462001022 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 645462001023 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 645462001024 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 645462001025 binding surface 645462001026 Tetratricopeptide repeat; Region: TPR_12; pfam13424 645462001027 TPR motif; other site 645462001028 heat shock protein 90; Provisional; Region: PRK05218 645462001029 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 645462001030 ATP binding site [chemical binding]; other site 645462001031 Mg2+ binding site [ion binding]; other site 645462001032 G-X-G motif; other site 645462001033 Hsp90 protein; Region: HSP90; pfam00183 645462001034 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH1; cd08185 645462001035 putative active site [active] 645462001036 metal binding site [ion binding]; metal-binding site 645462001037 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 645462001038 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 645462001039 FeS/SAM binding site; other site 645462001040 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 645462001041 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 645462001042 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 645462001043 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 645462001044 Protein of unknown function (DUF3788); Region: DUF3788; pfam12663 645462001045 Predicted transcriptional regulators [Transcription]; Region: COG1733 645462001046 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 645462001047 putative hydrolase; Validated; Region: PRK09248 645462001048 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 645462001049 active site 645462001050 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 645462001051 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 645462001052 Walker A motif; other site 645462001053 ATP binding site [chemical binding]; other site 645462001054 Walker B motif; other site 645462001055 arginine finger; other site 645462001056 Transcriptional antiterminator [Transcription]; Region: COG3933 645462001057 PRD domain; Region: PRD; pfam00874 645462001058 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 645462001059 active pocket/dimerization site; other site 645462001060 active site 645462001061 phosphorylation site [posttranslational modification] 645462001062 PRD domain; Region: PRD; pfam00874 645462001063 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 645462001064 active pocket/dimerization site; other site 645462001065 active site 645462001066 phosphorylation site [posttranslational modification] 645462001067 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 645462001068 active site 645462001069 phosphorylation site [posttranslational modification] 645462001070 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 645462001071 active pocket/dimerization site; other site 645462001072 active site 645462001073 phosphorylation site [posttranslational modification] 645462001074 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 645462001075 active site 645462001076 phosphorylation site [posttranslational modification] 645462001077 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 645462001078 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 645462001079 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 645462001080 dipeptidase PepV; Reviewed; Region: PRK07318 645462001081 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 645462001082 active site 645462001083 metal binding site [ion binding]; metal-binding site 645462001084 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 645462001085 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 645462001086 non-specific DNA binding site [nucleotide binding]; other site 645462001087 salt bridge; other site 645462001088 sequence-specific DNA binding site [nucleotide binding]; other site 645462001089 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 645462001090 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 645462001091 Walker A/P-loop; other site 645462001092 ATP binding site [chemical binding]; other site 645462001093 Q-loop/lid; other site 645462001094 ABC transporter signature motif; other site 645462001095 Walker B; other site 645462001096 D-loop; other site 645462001097 H-loop/switch region; other site 645462001098 Acyltransferase family; Region: Acyl_transf_3; cl19154 645462001099 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 645462001100 Domain of unknown function (DUF362); Region: DUF362; cl19822 645462001101 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 645462001102 biotin synthase; Region: bioB; TIGR00433 645462001103 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 645462001104 FeS/SAM binding site; other site 645462001105 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 645462001106 Transcriptional regulators [Transcription]; Region: PurR; COG1609 645462001107 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 645462001108 DNA binding site [nucleotide binding] 645462001109 domain linker motif; other site 645462001110 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 645462001111 dimerization interface [polypeptide binding]; other site 645462001112 ligand binding site [chemical binding]; other site 645462001113 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 645462001114 substrate binding site [chemical binding]; other site 645462001115 dimer interface [polypeptide binding]; other site 645462001116 ATP binding site [chemical binding]; other site 645462001117 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 645462001118 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 645462001119 ligand binding site [chemical binding]; other site 645462001120 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 645462001121 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 645462001122 Walker A/P-loop; other site 645462001123 ATP binding site [chemical binding]; other site 645462001124 Q-loop/lid; other site 645462001125 ABC transporter signature motif; other site 645462001126 Walker B; other site 645462001127 D-loop; other site 645462001128 H-loop/switch region; other site 645462001129 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 645462001130 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 645462001131 TM-ABC transporter signature motif; other site 645462001132 acetylornithine deacetylase or succinyl-diaminopimelate desuccinylase; Region: DapE-ArgE; TIGR01910 645462001133 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 645462001134 metal binding site [ion binding]; metal-binding site 645462001135 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 645462001136 1,3-beta-galactosyl-N-acetylhexosamine phosphorylase; Region: TIGR02336 645462001137 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 645462001138 putative metal binding site [ion binding]; other site 645462001139 Nitroreductase [Energy production and conversion]; Region: NfnB; COG0778 645462001140 FMN binding site [chemical binding]; other site 645462001141 dimer interface [polypeptide binding]; other site 645462001142 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 645462001143 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 645462001144 Tetratricopeptide repeat; Region: TPR_16; pfam13432 645462001145 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 645462001146 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 645462001147 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 645462001148 dimerization interface [polypeptide binding]; other site 645462001149 putative DNA binding site [nucleotide binding]; other site 645462001150 putative Zn2+ binding site [ion binding]; other site 645462001151 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 645462001152 metal-binding site [ion binding] 645462001153 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 645462001154 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 645462001155 metal-binding site [ion binding] 645462001156 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 645462001157 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 645462001158 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 645462001159 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 645462001160 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 645462001161 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 645462001162 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 645462001163 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 645462001164 Walker A/P-loop; other site 645462001165 ATP binding site [chemical binding]; other site 645462001166 Q-loop/lid; other site 645462001167 ABC transporter signature motif; other site 645462001168 Walker B; other site 645462001169 D-loop; other site 645462001170 H-loop/switch region; other site 645462001171 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462001172 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 645462001173 dimer interface [polypeptide binding]; other site 645462001174 phosphorylation site [posttranslational modification] 645462001175 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 645462001176 ATP binding site [chemical binding]; other site 645462001177 Mg2+ binding site [ion binding]; other site 645462001178 G-X-G motif; other site 645462001179 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462001180 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 645462001181 active site 645462001182 phosphorylation site [posttranslational modification] 645462001183 intermolecular recognition site; other site 645462001184 dimerization interface [polypeptide binding]; other site 645462001185 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 645462001186 DNA binding site [nucleotide binding] 645462001187 Helix-turn-helix domain; Region: HTH_17; pfam12728 645462001188 MoxR-like ATPases [General function prediction only]; Region: COG0714 645462001189 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 645462001190 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 645462001191 metal ion-dependent adhesion site (MIDAS); other site 645462001192 cobalt transport protein CbiM; Validated; Region: PRK08319 645462001193 cobalt transport protein CbiN; Provisional; Region: PRK02898 645462001194 Cobalt transport protein; Region: CbiQ; cl00463 645462001195 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 645462001196 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 645462001197 Walker A/P-loop; other site 645462001198 ATP binding site [chemical binding]; other site 645462001199 Q-loop/lid; other site 645462001200 ABC transporter signature motif; other site 645462001201 Walker B; other site 645462001202 D-loop; other site 645462001203 H-loop/switch region; other site 645462001204 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 645462001205 Part of AAA domain; Region: AAA_19; pfam13245 645462001206 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 645462001207 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 645462001208 active site 645462001209 metal binding site [ion binding]; metal-binding site 645462001210 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 645462001211 active site 645462001212 nucleophile elbow; other site 645462001213 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 645462001214 active site 645462001215 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 645462001216 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 645462001217 DRTGG domain; Region: DRTGG; pfam07085 645462001218 CBS domain; Region: CBS; pfam00571 645462001219 DHHA2 domain; Region: DHHA2; pfam02833 645462001220 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 645462001221 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 645462001222 putative catalytic cysteine [active] 645462001223 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 645462001224 putative active site [active] 645462001225 metal binding site [ion binding]; metal-binding site 645462001226 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 645462001227 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 645462001228 Walker A/P-loop; other site 645462001229 ATP binding site [chemical binding]; other site 645462001230 Q-loop/lid; other site 645462001231 ABC transporter signature motif; other site 645462001232 Walker B; other site 645462001233 D-loop; other site 645462001234 H-loop/switch region; other site 645462001235 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 645462001236 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 645462001237 FtsX-like permease family; Region: FtsX; pfam02687 645462001238 FtsX-like permease family; Region: FtsX; pfam02687 645462001239 Sensor_kinase_SpoOB-type, alpha-helical domain; Region: SPOB_a; pfam14689 645462001240 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 645462001241 ATP binding site [chemical binding]; other site 645462001242 Mg2+ binding site [ion binding]; other site 645462001243 G-X-G motif; other site 645462001244 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 645462001245 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 645462001246 active site 645462001247 phosphorylation site [posttranslational modification] 645462001248 intermolecular recognition site; other site 645462001249 dimerization interface [polypeptide binding]; other site 645462001250 LytTr DNA-binding domain; Region: LytTR; pfam04397 645462001251 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 645462001252 Putative zinc- or iron-chelating domain; Region: CxxCxxCC; pfam03692 645462001253 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 645462001254 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 645462001255 synthetase active site [active] 645462001256 NTP binding site [chemical binding]; other site 645462001257 metal binding site [ion binding]; metal-binding site 645462001258 Predicted phosphohydrolase [General function prediction only]; Region: COG1768 645462001259 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 645462001260 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: MDN1; COG5271 645462001261 Methyltransferase domain; Region: Methyltransf_31; pfam13847 645462001262 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 645462001263 S-adenosylmethionine binding site [chemical binding]; other site 645462001264 Uncharacterized conserved protein [Function unknown]; Region: COG5663 645462001265 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 645462001266 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 645462001267 non-specific DNA binding site [nucleotide binding]; other site 645462001268 salt bridge; other site 645462001269 sequence-specific DNA binding site [nucleotide binding]; other site 645462001270 Cupin domain; Region: Cupin_2; pfam07883 645462001271 D-aminoacyl-tRNA deacylase; Region: tRNA_deacylase; cl00716 645462001272 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 645462001273 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 645462001274 active site turn [active] 645462001275 phosphorylation site [posttranslational modification] 645462001276 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 645462001277 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 645462001278 HPr interaction site; other site 645462001279 glycerol kinase (GK) interaction site [polypeptide binding]; other site 645462001280 active site 645462001281 phosphorylation site [posttranslational modification] 645462001282 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; cl01046 645462001283 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 645462001284 transcriptional antiterminator BglG; Provisional; Region: PRK09772 645462001285 CAT RNA binding domain; Region: CAT_RBD; smart01061 645462001286 PRD domain; Region: PRD; pfam00874 645462001287 PRD domain; Region: PRD; pfam00874 645462001288 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 645462001289 active site 645462001290 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 645462001291 Ligand Binding Site [chemical binding]; other site 645462001292 Molecular Tunnel; other site 645462001293 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 645462001294 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 645462001295 FeS/SAM binding site; other site 645462001296 TIGR04002 family protein; Region: TIGR04002 645462001297 D-lactate dehydrogenase; Validated; Region: PRK08605 645462001298 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 645462001299 homodimer interface [polypeptide binding]; other site 645462001300 ligand binding site [chemical binding]; other site 645462001301 NAD binding site [chemical binding]; other site 645462001302 catalytic site [active] 645462001303 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 645462001304 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 645462001305 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 645462001306 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 645462001307 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 645462001308 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 645462001309 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 645462001310 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 645462001311 active site 645462001312 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 645462001313 Ligand binding site [chemical binding]; other site 645462001314 Electron transfer flavoprotein domain; Region: ETF; pfam01012 645462001315 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 645462001316 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 645462001317 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 645462001318 PAS domain; Region: PAS; smart00091 645462001319 PAS domain; Region: PAS_9; pfam13426 645462001320 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 645462001321 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 645462001322 Walker A motif; other site 645462001323 ATP binding site [chemical binding]; other site 645462001324 Walker B motif; other site 645462001325 arginine finger; other site 645462001326 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 645462001327 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 645462001328 intersubunit interface [polypeptide binding]; other site 645462001329 active site 645462001330 zinc binding site [ion binding]; other site 645462001331 Na+ binding site [ion binding]; other site 645462001332 Domain of unknown function (DUF1904); Region: DUF1904; pfam08921 645462001333 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 645462001334 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 645462001335 Probable transposase; Region: OrfB_IS605; pfam01385 645462001336 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 645462001337 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 645462001338 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 645462001339 S-adenosylmethionine binding site [chemical binding]; other site 645462001340 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 645462001341 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462001342 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462001343 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462001344 putative transposase OrfB; Reviewed; Region: PHA02517 645462001345 HTH-like domain; Region: HTH_21; pfam13276 645462001346 Integrase core domain; Region: rve; pfam00665 645462001347 Integrase core domain; Region: rve_2; pfam13333 645462001348 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 645462001349 Helix-turn-helix domain; Region: HTH_28; pfam13518 645462001350 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 645462001351 Helix-turn-helix domain; Region: HTH_28; pfam13518 645462001352 PAS domain; Region: PAS_9; pfam13426 645462001353 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 645462001354 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 645462001355 Walker A motif; other site 645462001356 ATP binding site [chemical binding]; other site 645462001357 Walker B motif; other site 645462001358 arginine finger; other site 645462001359 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 645462001360 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 645462001361 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; cl19130 645462001362 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 645462001363 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 645462001364 catalytic residue [active] 645462001365 D-Lysine 5,6-aminomutase alpha subunit; Region: Lys-AminoMut_A; pfam09043 645462001366 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 645462001367 B12 binding site [chemical binding]; other site 645462001368 MutL protein; Region: MutL; pfam13941 645462001369 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 645462001370 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 645462001371 dimer interface [polypeptide binding]; other site 645462001372 active site 645462001373 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 645462001374 substrate binding site [chemical binding]; other site 645462001375 catalytic residue [active] 645462001376 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 645462001377 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 645462001378 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 645462001379 active site 645462001380 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 645462001381 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 645462001382 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 645462001383 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 645462001384 Part of AAA domain; Region: AAA_19; pfam13245 645462001385 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 645462001386 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 645462001387 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 645462001388 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462001389 Walker A/P-loop; other site 645462001390 ATP binding site [chemical binding]; other site 645462001391 Q-loop/lid; other site 645462001392 ABC transporter signature motif; other site 645462001393 Walker B; other site 645462001394 D-loop; other site 645462001395 H-loop/switch region; other site 645462001396 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 645462001397 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 645462001398 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 645462001399 Walker A/P-loop; other site 645462001400 ATP binding site [chemical binding]; other site 645462001401 Q-loop/lid; other site 645462001402 ABC transporter signature motif; other site 645462001403 Walker B; other site 645462001404 D-loop; other site 645462001405 H-loop/switch region; other site 645462001406 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 645462001407 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 645462001408 FtsX-like permease family; Region: FtsX; pfam02687 645462001409 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 645462001410 FtsX-like permease family; Region: FtsX; pfam02687 645462001411 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462001412 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 645462001413 dimer interface [polypeptide binding]; other site 645462001414 phosphorylation site [posttranslational modification] 645462001415 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 645462001416 ATP binding site [chemical binding]; other site 645462001417 Mg2+ binding site [ion binding]; other site 645462001418 G-X-G motif; other site 645462001419 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462001420 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 645462001421 active site 645462001422 dimerization interface [polypeptide binding]; other site 645462001423 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 645462001424 DNA binding site [nucleotide binding] 645462001425 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 645462001426 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 645462001427 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 645462001428 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 645462001429 Probable transposase; Region: OrfB_IS605; pfam01385 645462001430 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 645462001431 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 645462001432 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 645462001433 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 645462001434 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 645462001435 putative active site [active] 645462001436 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 645462001437 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 645462001438 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 645462001439 putative active site [active] 645462001440 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 645462001441 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 645462001442 active site 645462001443 motif I; other site 645462001444 motif II; other site 645462001445 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 645462001446 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 645462001447 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 645462001448 Ca binding site [ion binding]; other site 645462001449 active site 645462001450 catalytic site [active] 645462001451 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 645462001452 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 645462001453 active site turn [active] 645462001454 phosphorylation site [posttranslational modification] 645462001455 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 645462001456 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 645462001457 HPr interaction site; other site 645462001458 glycerol kinase (GK) interaction site [polypeptide binding]; other site 645462001459 active site 645462001460 phosphorylation site [posttranslational modification] 645462001461 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 645462001462 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 645462001463 Penicillinase repressor; Region: Penicillinase_R; pfam03965 645462001464 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 645462001465 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 645462001466 MarR family; Region: MarR_2; pfam12802 645462001467 Flavodoxins [Energy production and conversion]; Region: FldA; COG0716 645462001468 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 645462001469 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 645462001470 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 645462001471 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 645462001472 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 645462001473 Walker A/P-loop; other site 645462001474 ATP binding site [chemical binding]; other site 645462001475 Q-loop/lid; other site 645462001476 ABC transporter signature motif; other site 645462001477 Walker B; other site 645462001478 D-loop; other site 645462001479 H-loop/switch region; other site 645462001480 lantibiotic protection ABC transporter permease subunit, MutE/EpiE family; Region: lanti_perm_MutE; TIGR03732 645462001481 lantibiotic protection ABC transporter permease subunit, MutG family; Region: lanti_perm_MutG; TIGR03733 645462001482 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462001483 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 645462001484 active site 645462001485 phosphorylation site [posttranslational modification] 645462001486 intermolecular recognition site; other site 645462001487 dimerization interface [polypeptide binding]; other site 645462001488 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 645462001489 DNA binding site [nucleotide binding] 645462001490 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462001491 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 645462001492 dimerization interface [polypeptide binding]; other site 645462001493 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 645462001494 dimer interface [polypeptide binding]; other site 645462001495 phosphorylation site [posttranslational modification] 645462001496 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 645462001497 ATP binding site [chemical binding]; other site 645462001498 Mg2+ binding site [ion binding]; other site 645462001499 G-X-G motif; other site 645462001500 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 645462001501 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 645462001502 FtsX-like permease family; Region: FtsX; pfam02687 645462001503 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 645462001504 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 645462001505 FtsX-like permease family; Region: FtsX; pfam02687 645462001506 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 645462001507 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 645462001508 Walker A/P-loop; other site 645462001509 ATP binding site [chemical binding]; other site 645462001510 Q-loop/lid; other site 645462001511 ABC transporter signature motif; other site 645462001512 Walker B; other site 645462001513 D-loop; other site 645462001514 H-loop/switch region; other site 645462001515 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 645462001516 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462001517 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 645462001518 dimerization interface [polypeptide binding]; other site 645462001519 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 645462001520 dimer interface [polypeptide binding]; other site 645462001521 phosphorylation site [posttranslational modification] 645462001522 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 645462001523 ATP binding site [chemical binding]; other site 645462001524 Mg2+ binding site [ion binding]; other site 645462001525 G-X-G motif; other site 645462001526 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462001527 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 645462001528 active site 645462001529 phosphorylation site [posttranslational modification] 645462001530 intermolecular recognition site; other site 645462001531 dimerization interface [polypeptide binding]; other site 645462001532 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 645462001533 DNA binding site [nucleotide binding] 645462001534 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 645462001535 putative active site [active] 645462001536 catalytic triad [active] 645462001537 dimer interface [polypeptide binding]; other site 645462001538 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 645462001539 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt; cl00231 645462001540 ATP binding site [chemical binding]; other site 645462001541 active site 645462001542 substrate binding site [chemical binding]; other site 645462001543 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 645462001544 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 645462001545 putative NAD(P) binding site [chemical binding]; other site 645462001546 catalytic Zn binding site [ion binding]; other site 645462001547 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 645462001548 active pocket/dimerization site; other site 645462001549 active site 645462001550 phosphorylation site [posttranslational modification] 645462001551 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 645462001552 active site 645462001553 phosphorylation site [posttranslational modification] 645462001554 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 645462001555 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 645462001556 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462001557 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 645462001558 active site 645462001559 phosphorylation site [posttranslational modification] 645462001560 intermolecular recognition site; other site 645462001561 dimerization interface [polypeptide binding]; other site 645462001562 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 645462001563 DNA binding site [nucleotide binding] 645462001564 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462001565 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 645462001566 dimerization interface [polypeptide binding]; other site 645462001567 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 645462001568 dimer interface [polypeptide binding]; other site 645462001569 phosphorylation site [posttranslational modification] 645462001570 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 645462001571 ATP binding site [chemical binding]; other site 645462001572 Mg2+ binding site [ion binding]; other site 645462001573 G-X-G motif; other site 645462001574 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462001575 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462001576 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462001577 flagellin; Validated; Region: PRK08026 645462001578 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 645462001579 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl19191 645462001580 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 645462001581 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 645462001582 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 645462001583 Walker A motif; other site 645462001584 ATP binding site [chemical binding]; other site 645462001585 Walker B motif; other site 645462001586 arginine finger; other site 645462001587 Transcriptional antiterminator [Transcription]; Region: COG3933 645462001588 PRD domain; Region: PRD; pfam00874 645462001589 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 645462001590 active pocket/dimerization site; other site 645462001591 active site 645462001592 phosphorylation site [posttranslational modification] 645462001593 PRD domain; Region: PRD; pfam00874 645462001594 Uncharacterized conserved protein [Function unknown]; Region: COG2966 645462001595 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 645462001596 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 645462001597 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 645462001598 GAF domain; Region: GAF_3; pfam13492 645462001599 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 645462001600 dimer interface [polypeptide binding]; other site 645462001601 phosphorylation site [posttranslational modification] 645462001602 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 645462001603 ATP binding site [chemical binding]; other site 645462001604 Mg2+ binding site [ion binding]; other site 645462001605 G-X-G motif; other site 645462001606 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462001607 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 645462001608 active site 645462001609 phosphorylation site [posttranslational modification] 645462001610 intermolecular recognition site; other site 645462001611 dimerization interface [polypeptide binding]; other site 645462001612 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 645462001613 DNA binding site [nucleotide binding] 645462001614 GAF domain; Region: GAF_2; pfam13185 645462001615 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 645462001616 metal binding site [ion binding]; metal-binding site 645462001617 active site 645462001618 I-site; other site 645462001619 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 645462001620 metal binding site [ion binding]; metal-binding site 645462001621 active site 645462001622 I-site; other site 645462001623 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 645462001624 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 645462001625 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 645462001626 peptidase T-like protein; Region: PepT-like; TIGR01883 645462001627 metal binding site [ion binding]; metal-binding site 645462001628 putative dimer interface [polypeptide binding]; other site 645462001629 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 645462001630 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 645462001631 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 645462001632 M20 Peptidase Aminoacylase 1-like protein 2, amidohydrolase family; Region: M20_Acy1L2_like_2; cd09849 645462001633 metal binding site [ion binding]; metal-binding site 645462001634 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 645462001635 Predicted transcriptional regulator [Transcription]; Region: COG2378 645462001636 HTH domain; Region: HTH_11; pfam08279 645462001637 WYL domain; Region: WYL; pfam13280 645462001638 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 645462001639 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 645462001640 active site 645462001641 phosphorylation site [posttranslational modification] 645462001642 intermolecular recognition site; other site 645462001643 dimerization interface [polypeptide binding]; other site 645462001644 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 645462001645 CheC-like family; Region: CheC; pfam04509 645462001646 CheD chemotactic sensory transduction; Region: CheD; cl00810 645462001647 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 645462001648 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 645462001649 active site 645462001650 phosphorylation site [posttranslational modification] 645462001651 intermolecular recognition site; other site 645462001652 dimerization interface [polypeptide binding]; other site 645462001653 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 645462001654 metal binding site [ion binding]; metal-binding site 645462001655 active site 645462001656 I-site; other site 645462001657 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 645462001658 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 645462001659 dimerization interface [polypeptide binding]; other site 645462001660 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 645462001661 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cl19050 645462001662 dimer interface [polypeptide binding]; other site 645462001663 putative CheW interface [polypeptide binding]; other site 645462001664 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 645462001665 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 645462001666 putative binding surface; other site 645462001667 active site 645462001668 P2 response regulator binding domain; Region: P2; pfam07194 645462001669 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 645462001670 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 645462001671 ATP binding site [chemical binding]; other site 645462001672 Mg2+ binding site [ion binding]; other site 645462001673 G-X-G motif; other site 645462001674 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 645462001675 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 645462001676 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 645462001677 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 645462001678 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 645462001679 CheB methylesterase; Region: CheB_methylest; pfam01339 645462001680 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 645462001681 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 645462001682 ornithine cyclodeaminase; Validated; Region: PRK08618 645462001683 Shikimate / quinate 5-dehydrogenase; Region: Shikimate_DH; cl19124 645462001684 Protein of unknown function (DUF975); Region: DUF975; cl10504 645462001685 Penicillinase repressor; Region: Penicillinase_R; pfam03965 645462001686 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 645462001687 Formin Homology 2 Domain; Region: FH2; cl19758 645462001688 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 645462001689 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 645462001690 Protease prsW family; Region: PrsW-protease; pfam13367 645462001691 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 645462001692 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 645462001693 S-adenosylmethionine binding site [chemical binding]; other site 645462001694 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 645462001695 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 645462001696 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 645462001697 Catalytic site [active] 645462001698 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 645462001699 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 645462001700 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 645462001701 Catalytic site [active] 645462001702 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 645462001703 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 645462001704 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 645462001705 active site 645462001706 glutaminase A; Region: Gln_ase; TIGR03814 645462001707 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 645462001708 dimerization interface [polypeptide binding]; other site 645462001709 putative DNA binding site [nucleotide binding]; other site 645462001710 putative Zn2+ binding site [ion binding]; other site 645462001711 Endonuclease IV [DNA replication, recombination, and repair]; Region: Nfo; COG0648 645462001712 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 645462001713 AP (apurinic/apyrimidinic) site pocket; other site 645462001714 DNA interaction; other site 645462001715 Metal-binding active site; metal-binding site 645462001716 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 645462001717 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 645462001718 active site 645462001719 catalytic tetrad [active] 645462001720 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 645462001721 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 645462001722 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 645462001723 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 645462001724 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 645462001725 AAA domain; Region: AAA_32; pfam13654 645462001726 lon-related putative ATP-dependent protease; Region: lon_rel; TIGR00764 645462001727 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 645462001728 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 645462001729 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 645462001730 minor groove reading motif; other site 645462001731 helix-hairpin-helix signature motif; other site 645462001732 substrate binding pocket [chemical binding]; other site 645462001733 active site 645462001734 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 645462001735 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 645462001736 EDD domain protein, DegV family; Region: DegV; TIGR00762 645462001737 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 645462001738 ligand binding site [chemical binding]; other site 645462001739 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 645462001740 ligand binding site [chemical binding]; other site 645462001741 YtxC-like family; Region: YtxC; cl08500 645462001742 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399; cl19827 645462001743 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 645462001744 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 645462001745 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 645462001746 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 645462001747 active site 645462001748 dimer interface [polypeptide binding]; other site 645462001749 motif 1; other site 645462001750 motif 2; other site 645462001751 motif 3; other site 645462001752 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 645462001753 anticodon binding site; other site 645462001754 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 645462001755 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 645462001756 Probable transposase; Region: OrfB_IS605; pfam01385 645462001757 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 645462001758 Domain of unknown function (DUF4098); Region: DUF4098; cl19992 645462001759 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 645462001760 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 645462001761 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462001762 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 645462001763 ATP binding site [chemical binding]; other site 645462001764 Mg2+ binding site [ion binding]; other site 645462001765 G-X-G motif; other site 645462001766 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 645462001767 H+ Antiporter protein; Region: 2A0121; TIGR00900 645462001768 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 645462001769 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 645462001770 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 645462001771 tetrameric interface [polypeptide binding]; other site 645462001772 activator binding site; other site 645462001773 NADP binding site [chemical binding]; other site 645462001774 substrate binding site [chemical binding]; other site 645462001775 catalytic residues [active] 645462001776 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 645462001777 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 645462001778 phosphoenolpyruvate synthase; Validated; Region: PRK06241 645462001779 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 645462001780 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 645462001781 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 645462001782 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 645462001783 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 645462001784 Probable transposase; Region: OrfB_IS605; pfam01385 645462001785 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 645462001786 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 645462001787 G1 box; other site 645462001788 GTP/Mg2+ binding site [chemical binding]; other site 645462001789 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 645462001790 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 645462001791 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 645462001792 Soluble P-type ATPase [General function prediction only]; Region: COG4087 645462001793 Protein of unknown function (DUF3788); Region: DUF3788; pfam12663 645462001794 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 645462001795 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 645462001796 Active Sites [active] 645462001797 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 645462001798 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 645462001799 ParB-like nuclease domain; Region: ParBc; pfam02195 645462001800 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 645462001801 CotJB protein; Region: CotJB; pfam12652 645462001802 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 645462001803 dimanganese center [ion binding]; other site 645462001804 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 645462001805 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 645462001806 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 645462001807 DNA binding site [nucleotide binding] 645462001808 active site 645462001809 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 645462001810 GrpB protein; Region: GrpB; pfam04229 645462001811 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 645462001812 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 645462001813 Probable transposase; Region: OrfB_IS605; pfam01385 645462001814 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 645462001815 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 645462001816 GrpB protein; Region: GrpB; pfam04229 645462001817 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 645462001818 GHKL domain; Region: HATPase_c_5; pfam14501 645462001819 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 645462001820 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 645462001821 active site 645462001822 phosphorylation site [posttranslational modification] 645462001823 intermolecular recognition site; other site 645462001824 dimerization interface [polypeptide binding]; other site 645462001825 LytTr DNA-binding domain; Region: LytTR; smart00850 645462001826 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 645462001827 FtsX-like permease family; Region: FtsX; pfam02687 645462001828 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 645462001829 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 645462001830 Walker A/P-loop; other site 645462001831 ATP binding site [chemical binding]; other site 645462001832 Q-loop/lid; other site 645462001833 ABC transporter signature motif; other site 645462001834 Walker B; other site 645462001835 D-loop; other site 645462001836 H-loop/switch region; other site 645462001837 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 645462001838 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 645462001839 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 645462001840 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 645462001841 DNA binding residues [nucleotide binding] 645462001842 drug binding residues [chemical binding]; other site 645462001843 dimer interface [polypeptide binding]; other site 645462001844 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 645462001845 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 645462001846 LytTr DNA-binding domain; Region: LytTR; smart00850 645462001847 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 645462001848 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 645462001849 Mor transcription activator family; Region: Mor; cl02360 645462001850 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 645462001851 non-specific DNA interactions [nucleotide binding]; other site 645462001852 DNA binding site [nucleotide binding] 645462001853 sequence specific DNA binding site [nucleotide binding]; other site 645462001854 putative cAMP binding site [chemical binding]; other site 645462001855 Conserved phage C-terminus (Phg_2220_C); Region: Phg_2220_C; pfam09524 645462001856 replicative DNA helicase; Region: DnaB; TIGR00665 645462001857 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 645462001858 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 645462001859 Walker A motif; other site 645462001860 ATP binding site [chemical binding]; other site 645462001861 Walker B motif; other site 645462001862 Mor transcription activator family; Region: Mor; cl02360 645462001863 Ferredoxin [Energy production and conversion]; Region: COG1146 645462001864 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 645462001865 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 645462001866 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462001867 Walker A/P-loop; other site 645462001868 ATP binding site [chemical binding]; other site 645462001869 Q-loop/lid; other site 645462001870 ABC transporter signature motif; other site 645462001871 Walker B; other site 645462001872 D-loop; other site 645462001873 H-loop/switch region; other site 645462001874 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 645462001875 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 645462001876 ligand binding site [chemical binding]; other site 645462001877 flexible hinge region; other site 645462001878 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 645462001879 putative switch regulator; other site 645462001880 non-specific DNA interactions [nucleotide binding]; other site 645462001881 DNA binding site [nucleotide binding] 645462001882 sequence specific DNA binding site [nucleotide binding]; other site 645462001883 putative cAMP binding site [chemical binding]; other site 645462001884 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 645462001885 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 645462001886 Predicted transcriptional regulators [Transcription]; Region: COG1695 645462001887 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 645462001888 SnoaL-like domain; Region: SnoaL_2; pfam12680 645462001889 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 645462001890 Putative lysophospholipase; Region: Hydrolase_4; cl19140 645462001891 Radical SAM superfamily; Region: Radical_SAM; pfam04055 645462001892 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 645462001893 FeS/SAM binding site; other site 645462001894 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 645462001895 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 645462001896 Coenzyme A binding pocket [chemical binding]; other site 645462001897 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 645462001898 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 645462001899 Domain of unknown function (DUF3841); Region: DUF3841; pfam12952 645462001900 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 645462001901 non-specific DNA binding site [nucleotide binding]; other site 645462001902 salt bridge; other site 645462001903 sequence-specific DNA binding site [nucleotide binding]; other site 645462001904 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462001905 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 645462001906 active site 645462001907 phosphorylation site [posttranslational modification] 645462001908 intermolecular recognition site; other site 645462001909 dimerization interface [polypeptide binding]; other site 645462001910 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 645462001911 DNA binding site [nucleotide binding] 645462001912 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462001913 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 645462001914 dimer interface [polypeptide binding]; other site 645462001915 phosphorylation site [posttranslational modification] 645462001916 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 645462001917 ATP binding site [chemical binding]; other site 645462001918 Mg2+ binding site [ion binding]; other site 645462001919 G-X-G motif; other site 645462001920 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 645462001921 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 645462001922 Walker A/P-loop; other site 645462001923 ATP binding site [chemical binding]; other site 645462001924 Q-loop/lid; other site 645462001925 ABC transporter signature motif; other site 645462001926 Walker B; other site 645462001927 D-loop; other site 645462001928 H-loop/switch region; other site 645462001929 Fic family protein [Function unknown]; Region: COG3177 645462001930 Fic/DOC family; Region: Fic; pfam02661 645462001931 Transcriptional regulators [Transcription]; Region: FadR; COG2186 645462001932 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 645462001933 DNA-binding site [nucleotide binding]; DNA binding site 645462001934 FCD domain; Region: FCD; pfam07729 645462001935 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 645462001936 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 645462001937 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 645462001938 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 645462001939 Predicted transcriptional regulators [Transcription]; Region: COG1725 645462001940 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 645462001941 DNA-binding site [nucleotide binding]; DNA binding site 645462001942 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 645462001943 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 645462001944 Walker A/P-loop; other site 645462001945 ATP binding site [chemical binding]; other site 645462001946 Q-loop/lid; other site 645462001947 ABC transporter signature motif; other site 645462001948 Walker B; other site 645462001949 D-loop; other site 645462001950 H-loop/switch region; other site 645462001951 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 645462001952 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 645462001953 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 645462001954 Cl- selectivity filter; other site 645462001955 Cl- binding residues [ion binding]; other site 645462001956 pore gating glutamate residue; other site 645462001957 dimer interface [polypeptide binding]; other site 645462001958 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 645462001959 Penicillinase repressor; Region: Penicillinase_R; cl17580 645462001960 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 645462001961 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 645462001962 DNA binding residues [nucleotide binding] 645462001963 TcdB toxin N-terminal helical domain; Region: TcdB_N; pfam12918 645462001964 TcdA/TcdB catalytic glycosyltransferase domain; Region: TcdA_TcdB; pfam12919 645462001965 Peptidase C80 family; Region: Peptidase_C80; pfam11713 645462001966 TcdA/TcdB pore forming domain; Region: TcdA_TcdB_pore; pfam12920 645462001967 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 645462001968 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 645462001969 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 645462001970 Holin family; Region: Phage_holin_4; cl01989 645462001971 TcdB toxin N-terminal helical domain; Region: TcdB_N; pfam12918 645462001972 TcdA/TcdB catalytic glycosyltransferase domain; Region: TcdA_TcdB; pfam12919 645462001973 Peptidase C80 family; Region: Peptidase_C80; pfam11713 645462001974 TcdA/TcdB pore forming domain; Region: TcdA_TcdB_pore; pfam12920 645462001975 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 645462001976 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 645462001977 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 645462001978 Pathogenicity locus; Region: Cdd1; pfam11731 645462001979 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 645462001980 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200 645462001981 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 645462001982 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 645462001983 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462001984 Walker A/P-loop; other site 645462001985 ATP binding site [chemical binding]; other site 645462001986 Q-loop/lid; other site 645462001987 ABC transporter signature motif; other site 645462001988 Walker B; other site 645462001989 D-loop; other site 645462001990 H-loop/switch region; other site 645462001991 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462001992 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 645462001993 active site 645462001994 phosphorylation site [posttranslational modification] 645462001995 intermolecular recognition site; other site 645462001996 dimerization interface [polypeptide binding]; other site 645462001997 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 645462001998 DNA binding site [nucleotide binding] 645462001999 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 645462002000 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 645462002001 dimer interface [polypeptide binding]; other site 645462002002 phosphorylation site [posttranslational modification] 645462002003 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 645462002004 ATP binding site [chemical binding]; other site 645462002005 Mg2+ binding site [ion binding]; other site 645462002006 G-X-G motif; other site 645462002007 Penicillinase repressor; Region: Penicillinase_R; cl17580 645462002008 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 645462002009 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 645462002010 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 645462002011 S-adenosylmethionine binding site [chemical binding]; other site 645462002012 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 645462002013 Coenzyme A binding pocket [chemical binding]; other site 645462002014 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 645462002015 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 645462002016 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 645462002017 DNA binding residues [nucleotide binding] 645462002018 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 645462002019 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 645462002020 active site 645462002021 putative substrate binding pocket [chemical binding]; other site 645462002022 SnoaL-like domain; Region: SnoaL_2; pfam12680 645462002023 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 645462002024 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 645462002025 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 645462002026 benzoate transport; Region: 2A0115; TIGR00895 645462002027 putative substrate translocation pore; other site 645462002028 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 645462002029 Na binding site [ion binding]; other site 645462002030 Transcriptional regulators [Transcription]; Region: PurR; COG1609 645462002031 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 645462002032 DNA binding site [nucleotide binding] 645462002033 domain linker motif; other site 645462002034 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 645462002035 putative ligand binding site [chemical binding]; other site 645462002036 putative dimerization interface [polypeptide binding]; other site 645462002037 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 645462002038 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 645462002039 Walker A motif; other site 645462002040 ATP binding site [chemical binding]; other site 645462002041 Walker B motif; other site 645462002042 arginine finger; other site 645462002043 Peptidase family M41; Region: Peptidase_M41; pfam01434 645462002044 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 645462002045 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 645462002046 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 645462002047 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 645462002048 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 645462002049 23S rRNA binding site [nucleotide binding]; other site 645462002050 L21 binding site [polypeptide binding]; other site 645462002051 L13 binding site [polypeptide binding]; other site 645462002052 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 645462002053 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 645462002054 active site 645462002055 metal binding site [ion binding]; metal-binding site 645462002056 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 645462002057 active site 645462002058 metal binding site [ion binding]; metal-binding site 645462002059 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 645462002060 active site 645462002061 metal binding site [ion binding]; metal-binding site 645462002062 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 645462002063 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 645462002064 active site 645462002065 metal binding site [ion binding]; metal-binding site 645462002066 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 645462002067 classical (c) SDRs; Region: SDR_c; cd05233 645462002068 NAD(P) binding site [chemical binding]; other site 645462002069 active site 645462002070 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 645462002071 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 645462002072 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 645462002073 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 645462002074 DNA binding residues [nucleotide binding] 645462002075 drug binding residues [chemical binding]; other site 645462002076 dimer interface [polypeptide binding]; other site 645462002077 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 645462002078 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 645462002079 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 645462002080 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 645462002081 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 645462002082 active site 645462002083 Zn binding site [ion binding]; other site 645462002084 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 645462002085 Cation transport protein; Region: TrkH; cl17365 645462002086 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 645462002087 TrkA-N domain; Region: TrkA_N; pfam02254 645462002088 TrkA-C domain; Region: TrkA_C; pfam02080 645462002089 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 645462002090 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 645462002091 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 645462002092 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 645462002093 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 645462002094 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 645462002095 dimer interface [polypeptide binding]; other site 645462002096 motif 1; other site 645462002097 active site 645462002098 motif 2; other site 645462002099 motif 3; other site 645462002100 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 645462002101 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 645462002102 putative tRNA-binding site [nucleotide binding]; other site 645462002103 B3/4 domain; Region: B3_4; pfam03483 645462002104 tRNA synthetase B5 domain; Region: B5; smart00874 645462002105 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 645462002106 dimer interface [polypeptide binding]; other site 645462002107 motif 1; other site 645462002108 motif 3; other site 645462002109 motif 2; other site 645462002110 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 645462002111 Cell division protein ZapA; Region: ZapA; pfam05164 645462002112 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 645462002113 putative protease; Provisional; Region: PRK15452 645462002114 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 645462002115 Collagenase; Region: DUF3656; pfam12392 645462002116 Peptidase family U32; Region: Peptidase_U32; pfam01136 645462002117 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 645462002118 Zn2+ binding site [ion binding]; other site 645462002119 Mg2+ binding site [ion binding]; other site 645462002120 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 645462002121 putative active site [active] 645462002122 nucleotide binding site [chemical binding]; other site 645462002123 nudix motif; other site 645462002124 putative metal binding site [ion binding]; other site 645462002125 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 645462002126 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 645462002127 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 645462002128 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 645462002129 FMN binding site [chemical binding]; other site 645462002130 dimer interface [polypeptide binding]; other site 645462002131 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 645462002132 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 645462002133 substrate binding pocket [chemical binding]; other site 645462002134 membrane-bound complex binding site; other site 645462002135 hinge residues; other site 645462002136 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 645462002137 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 645462002138 substrate binding pocket [chemical binding]; other site 645462002139 membrane-bound complex binding site; other site 645462002140 hinge residues; other site 645462002141 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 645462002142 metal binding site [ion binding]; metal-binding site 645462002143 active site 645462002144 I-site; other site 645462002145 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 645462002146 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 645462002147 metal binding site [ion binding]; metal-binding site 645462002148 dimer interface [polypeptide binding]; other site 645462002149 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 645462002150 MutS domain III; Region: MutS_III; pfam05192 645462002151 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 645462002152 Walker A/P-loop; other site 645462002153 ATP binding site [chemical binding]; other site 645462002154 Q-loop/lid; other site 645462002155 ABC transporter signature motif; other site 645462002156 Walker B; other site 645462002157 D-loop; other site 645462002158 H-loop/switch region; other site 645462002159 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 645462002160 Smr domain; Region: Smr; pfam01713 645462002161 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 645462002162 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 645462002163 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 645462002164 active site 645462002165 HIGH motif; other site 645462002166 KMSK motif region; other site 645462002167 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 645462002168 tRNA binding surface [nucleotide binding]; other site 645462002169 anticodon binding site; other site 645462002170 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 645462002171 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 645462002172 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 645462002173 FeS/SAM binding site; other site 645462002174 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 645462002175 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 645462002176 binding surface 645462002177 TPR motif; other site 645462002178 TPR repeat; Region: TPR_11; pfam13414 645462002179 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 645462002180 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 645462002181 ACS interaction site; other site 645462002182 CODH interaction site; other site 645462002183 metal cluster binding site [ion binding]; other site 645462002184 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 645462002185 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 645462002186 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 645462002187 P-loop; other site 645462002188 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 645462002189 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 645462002190 Potassium binding sites [ion binding]; other site 645462002191 Cesium cation binding sites [ion binding]; other site 645462002192 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 645462002193 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 645462002194 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 645462002195 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 645462002196 homodimer interface [polypeptide binding]; other site 645462002197 NADP binding site [chemical binding]; other site 645462002198 substrate binding site [chemical binding]; other site 645462002199 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 645462002200 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 645462002201 FAD binding site [chemical binding]; other site 645462002202 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 645462002203 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 645462002204 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 645462002205 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 645462002206 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 645462002207 P-loop; other site 645462002208 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452 645462002209 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 645462002210 Putative Fe-S cluster; Region: FeS; pfam04060 645462002211 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 645462002212 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 645462002213 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 645462002214 substrate binding pocket [chemical binding]; other site 645462002215 dimer interface [polypeptide binding]; other site 645462002216 inhibitor binding site; inhibition site 645462002217 bifunctional acetyl-CoA decarbonylase/synthase complex subunit alpha/beta; Reviewed; Region: PRK09529 645462002218 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 645462002219 ACS interaction site; other site 645462002220 CODH interaction site; other site 645462002221 metal cluster binding site [ion binding]; other site 645462002222 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; pfam03598 645462002223 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 645462002224 lipoyl attachment site [posttranslational modification]; other site 645462002225 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 645462002226 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 645462002227 catalytic loop [active] 645462002228 iron binding site [ion binding]; other site 645462002229 Domain of unknown function (DUF4445); Region: DUF4445; pfam14574 645462002230 Uncharacterized homolog of biotin synthetase [Function unknown]; Region: COG1856 645462002231 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 645462002232 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 645462002233 Biotin synthase-related enzyme [General function prediction only]; Region: COG2516 645462002234 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 645462002235 FeS/SAM binding site; other site 645462002236 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 645462002237 Predicted RNA-binding protein; Region: RNA_bind_2; pfam10133 645462002238 Domain of unknown function (DUF3842); Region: DUF3842; pfam12953 645462002239 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 645462002240 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 645462002241 active site 645462002242 dimer interface [polypeptide binding]; other site 645462002243 Domain of unknown function (DUF4300); Region: DUF4300; pfam14133 645462002244 Domains similar to the Pancreatic-derived factor; Region: PANDER_like; cl19122 645462002245 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 645462002246 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 645462002247 catalytic residue [active] 645462002248 glycerol kinase; Provisional; Region: glpK; PRK00047 645462002249 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 645462002250 N- and C-terminal domain interface [polypeptide binding]; other site 645462002251 active site 645462002252 MgATP binding site [chemical binding]; other site 645462002253 catalytic site [active] 645462002254 metal binding site [ion binding]; metal-binding site 645462002255 glycerol binding site [chemical binding]; other site 645462002256 homotetramer interface [polypeptide binding]; other site 645462002257 homodimer interface [polypeptide binding]; other site 645462002258 FBP binding site [chemical binding]; other site 645462002259 protein IIAGlc interface [polypeptide binding]; other site 645462002260 Ethanolamine utilisation protein, EutH; Region: EutH; pfam04346 645462002261 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 645462002262 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 645462002263 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 645462002264 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 645462002265 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 645462002266 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 645462002267 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 645462002268 ligand binding site [chemical binding]; other site 645462002269 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 645462002270 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 645462002271 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 645462002272 metal binding site [ion binding]; metal-binding site 645462002273 active site 645462002274 I-site; other site 645462002275 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 645462002276 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 645462002277 Part of AAA domain; Region: AAA_19; pfam13245 645462002278 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 645462002279 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 645462002280 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 645462002281 substrate binding pocket [chemical binding]; other site 645462002282 membrane-bound complex binding site; other site 645462002283 hinge residues; other site 645462002284 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 645462002285 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 645462002286 dimer interface [polypeptide binding]; other site 645462002287 conserved gate region; other site 645462002288 putative PBP binding loops; other site 645462002289 ABC-ATPase subunit interface; other site 645462002290 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 645462002291 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 645462002292 Walker A/P-loop; other site 645462002293 ATP binding site [chemical binding]; other site 645462002294 Q-loop/lid; other site 645462002295 ABC transporter signature motif; other site 645462002296 Walker B; other site 645462002297 D-loop; other site 645462002298 H-loop/switch region; other site 645462002299 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 645462002300 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 645462002301 catalytic residue [active] 645462002302 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 645462002303 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 645462002304 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 645462002305 Ligand Binding Site [chemical binding]; other site 645462002306 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 645462002307 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 645462002308 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 645462002309 FMN binding site [chemical binding]; other site 645462002310 dimer interface [polypeptide binding]; other site 645462002311 PAS fold; Region: PAS_3; pfam08447 645462002312 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 645462002313 metal binding site [ion binding]; metal-binding site 645462002314 active site 645462002315 I-site; other site 645462002316 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 645462002317 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 645462002318 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 645462002319 FeS/SAM binding site; other site 645462002320 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 645462002321 Pyruvate formate lyase 1; Region: PFL1; cd01678 645462002322 coenzyme A binding site [chemical binding]; other site 645462002323 active site 645462002324 catalytic residues [active] 645462002325 glycine loop; other site 645462002326 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 645462002327 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 645462002328 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 645462002329 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 645462002330 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 645462002331 ATP binding site [chemical binding]; other site 645462002332 Mg++ binding site [ion binding]; other site 645462002333 motif III; other site 645462002334 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 645462002335 nucleotide binding region [chemical binding]; other site 645462002336 ATP-binding site [chemical binding]; other site 645462002337 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 645462002338 RNA binding site [nucleotide binding]; other site 645462002339 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 645462002340 Mga helix-turn-helix domain; Region: Mga; pfam05043 645462002341 PRD domain; Region: PRD; pfam00874 645462002342 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 645462002343 active site 645462002344 P-loop; other site 645462002345 phosphorylation site [posttranslational modification] 645462002346 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 645462002347 active site 645462002348 phosphorylation site [posttranslational modification] 645462002349 Glucitol operon activator protein (GutM); Region: GutM; pfam06923 645462002350 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; pfam03608 645462002351 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 645462002352 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 645462002353 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 645462002354 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 645462002355 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 645462002356 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; pfam03829 645462002357 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 645462002358 Sorbitol 6-phosphate dehydrogenase (SDH), classical (c) SDRs; Region: SDH_SDR_c_like; cd05322 645462002359 putative NAD(P) binding site [chemical binding]; other site 645462002360 active site 645462002361 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 645462002362 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 645462002363 Probable transposase; Region: OrfB_IS605; pfam01385 645462002364 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 645462002365 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 645462002366 putative [4Fe-4S] binding site [ion binding]; other site 645462002367 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 645462002368 putative molybdopterin cofactor binding site [chemical binding]; other site 645462002369 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 645462002370 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 645462002371 anti sigma factor interaction site; other site 645462002372 regulatory phosphorylation site [posttranslational modification]; other site 645462002373 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 645462002374 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 645462002375 ATP binding site [chemical binding]; other site 645462002376 Mg2+ binding site [ion binding]; other site 645462002377 G-X-G motif; other site 645462002378 sporulation sigma factor SigF; Validated; Region: PRK05572 645462002379 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 645462002380 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 645462002381 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 645462002382 DNA binding residues [nucleotide binding] 645462002383 SpoVA protein; Region: SpoVA; cl04298 645462002384 stage V sporulation protein AD; Validated; Region: PRK08304 645462002385 stage V sporulation protein AD; Region: spore_V_AD; TIGR02845 645462002386 SpoVA protein; Region: SpoVA; pfam03862 645462002387 Transcriptional regulators [Transcription]; Region: PurR; COG1609 645462002388 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 645462002389 DNA binding site [nucleotide binding] 645462002390 domain linker motif; other site 645462002391 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 645462002392 ligand binding site [chemical binding]; other site 645462002393 dimerization interface [polypeptide binding]; other site 645462002394 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 645462002395 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 645462002396 amidohydrolase; Region: amidohydrolases; TIGR01891 645462002397 metal binding site [ion binding]; metal-binding site 645462002398 Protein of unknown function (DUF1177); Region: DUF1177; pfam06675 645462002399 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 645462002400 active site 645462002401 catalytic motif [active] 645462002402 Zn binding site [ion binding]; other site 645462002403 Transglycosylase; Region: Transgly; pfam00912 645462002404 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 645462002405 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 645462002406 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 645462002407 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 645462002408 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 645462002409 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 645462002410 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 645462002411 active site 645462002412 metal binding site [ion binding]; metal-binding site 645462002413 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 645462002414 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 645462002415 ABC transporter; Region: ABC_tran_2; pfam12848 645462002416 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 645462002417 Protein of unknown function (DUF1461); Region: DUF1461; pfam07314 645462002418 Cysteine-rich small domain; Region: zf-like; pfam04071 645462002419 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 645462002420 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 645462002421 HflX GTPase family; Region: HflX; cd01878 645462002422 G1 box; other site 645462002423 GTP/Mg2+ binding site [chemical binding]; other site 645462002424 Switch I region; other site 645462002425 G2 box; other site 645462002426 G3 box; other site 645462002427 Switch II region; other site 645462002428 G4 box; other site 645462002429 G5 box; other site 645462002430 HEAT repeats; Region: HEAT_2; pfam13646 645462002431 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 645462002432 active site 645462002433 Ap6A binding site [chemical binding]; other site 645462002434 nudix motif; other site 645462002435 metal binding site [ion binding]; metal-binding site 645462002436 Uncharacterized conserved protein [Function unknown]; Region: COG1739 645462002437 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 645462002438 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 645462002439 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 645462002440 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 645462002441 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 645462002442 homodimer interface [polypeptide binding]; other site 645462002443 NAD binding pocket [chemical binding]; other site 645462002444 ATP binding pocket [chemical binding]; other site 645462002445 Mg binding site [ion binding]; other site 645462002446 active-site loop [active] 645462002447 hypothetical protein; Validated; Region: PRK00110 645462002448 Transcriptional regulators [Transcription]; Region: PurR; COG1609 645462002449 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 645462002450 DNA binding site [nucleotide binding] 645462002451 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 645462002452 putative dimerization interface [polypeptide binding]; other site 645462002453 putative ligand binding site [chemical binding]; other site 645462002454 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 645462002455 active site 645462002456 catalytic residues [active] 645462002457 metal binding site [ion binding]; metal-binding site 645462002458 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 645462002459 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 645462002460 transmembrane helices; other site 645462002461 Citrate transporter; Region: CitMHS; pfam03600 645462002462 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 645462002463 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 645462002464 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 645462002465 substrate binding site [chemical binding]; other site 645462002466 oxyanion hole (OAH) forming residues; other site 645462002467 trimer interface [polypeptide binding]; other site 645462002468 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 645462002469 fructuronate transporter; Provisional; Region: PRK10034; cl15264 645462002470 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 645462002471 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 645462002472 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 645462002473 active site 645462002474 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 645462002475 Ligand binding site [chemical binding]; other site 645462002476 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 645462002477 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 645462002478 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 645462002479 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 645462002480 PAS domain; Region: PAS_9; pfam13426 645462002481 putative active site [active] 645462002482 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 645462002483 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 645462002484 Walker A motif; other site 645462002485 ATP binding site [chemical binding]; other site 645462002486 Walker B motif; other site 645462002487 arginine finger; other site 645462002488 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 645462002489 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 645462002490 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 645462002491 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 645462002492 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 645462002493 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 645462002494 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 645462002495 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 645462002496 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 645462002497 metal binding site [ion binding]; metal-binding site 645462002498 active site 645462002499 I-site; other site 645462002500 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 645462002501 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 645462002502 Ligand Binding Site [chemical binding]; other site 645462002503 PTS system, Lactose/Cellobiose specific IIB subunit; Region: PTS_IIB; pfam02302 645462002504 Transcriptional regulators [Transcription]; Region: FadR; COG2186 645462002505 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 645462002506 DNA-binding site [nucleotide binding]; DNA binding site 645462002507 FCD domain; Region: FCD; pfam07729 645462002508 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 645462002509 Major Facilitator Superfamily; Region: MFS_1; pfam07690 645462002510 putative substrate translocation pore; other site 645462002511 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 645462002512 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 645462002513 active site turn [active] 645462002514 phosphorylation site [posttranslational modification] 645462002515 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 645462002516 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 645462002517 HPr interaction site; other site 645462002518 glycerol kinase (GK) interaction site [polypeptide binding]; other site 645462002519 active site 645462002520 phosphorylation site [posttranslational modification] 645462002521 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 645462002522 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 645462002523 transcriptional antiterminator BglG; Provisional; Region: PRK09772 645462002524 CAT RNA binding domain; Region: CAT_RBD; smart01061 645462002525 PRD domain; Region: PRD; pfam00874 645462002526 PRD domain; Region: PRD; pfam00874 645462002527 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462002528 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 645462002529 active site 645462002530 phosphorylation site [posttranslational modification] 645462002531 intermolecular recognition site; other site 645462002532 dimerization interface [polypeptide binding]; other site 645462002533 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 645462002534 DNA binding site [nucleotide binding] 645462002535 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462002536 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 645462002537 dimer interface [polypeptide binding]; other site 645462002538 phosphorylation site [posttranslational modification] 645462002539 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 645462002540 ATP binding site [chemical binding]; other site 645462002541 Mg2+ binding site [ion binding]; other site 645462002542 G-X-G motif; other site 645462002543 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 645462002544 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 645462002545 Walker A/P-loop; other site 645462002546 ATP binding site [chemical binding]; other site 645462002547 Q-loop/lid; other site 645462002548 ABC transporter signature motif; other site 645462002549 Walker B; other site 645462002550 D-loop; other site 645462002551 H-loop/switch region; other site 645462002552 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 645462002553 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 645462002554 Rubrerythrin [Energy production and conversion]; Region: COG1592 645462002555 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 645462002556 binuclear metal center [ion binding]; other site 645462002557 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 645462002558 iron binding site [ion binding]; other site 645462002559 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 645462002560 metal binding site 2 [ion binding]; metal-binding site 645462002561 putative DNA binding helix; other site 645462002562 metal binding site 1 [ion binding]; metal-binding site 645462002563 dimer interface [polypeptide binding]; other site 645462002564 structural Zn2+ binding site [ion binding]; other site 645462002565 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 645462002566 non-heme iron binding site [ion binding]; other site 645462002567 Desulfoferrodoxin [Energy production and conversion]; Region: COG2033 645462002568 dimer interface [polypeptide binding]; other site 645462002569 Desulfoferrodoxin; Region: Desulfoferrodox; pfam01880 645462002570 non-heme iron binding site [ion binding]; other site 645462002571 Rubredoxin [Energy production and conversion]; Region: COG1773 645462002572 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 645462002573 iron binding site [ion binding]; other site 645462002574 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 645462002575 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 645462002576 active site 645462002577 FMN binding site [chemical binding]; other site 645462002578 substrate binding site [chemical binding]; other site 645462002579 3Fe-4S cluster binding site [ion binding]; other site 645462002580 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 645462002581 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 645462002582 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 645462002583 DEAD-like helicases superfamily; Region: DEXDc; smart00487 645462002584 ATP binding site [chemical binding]; other site 645462002585 Mg++ binding site [ion binding]; other site 645462002586 motif III; other site 645462002587 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 645462002588 nucleotide binding region [chemical binding]; other site 645462002589 ATP-binding site [chemical binding]; other site 645462002590 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 645462002591 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 645462002592 active site 645462002593 catalytic residues [active] 645462002594 metal binding site [ion binding]; metal-binding site 645462002595 aconitate hydratase; Validated; Region: PRK07229 645462002596 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 645462002597 substrate binding site [chemical binding]; other site 645462002598 ligand binding site [chemical binding]; other site 645462002599 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 645462002600 substrate binding site [chemical binding]; other site 645462002601 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 645462002602 Transcriptional regulators [Transcription]; Region: MarR; COG1846 645462002603 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 645462002604 dimerization interface [polypeptide binding]; other site 645462002605 putative Zn2+ binding site [ion binding]; other site 645462002606 putative DNA binding site [nucleotide binding]; other site 645462002607 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 645462002608 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 645462002609 Coenzyme A binding pocket [chemical binding]; other site 645462002610 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 645462002611 putative FMN binding site [chemical binding]; other site 645462002612 Trp repressor protein; Region: Trp_repressor; cl17266 645462002613 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cl17402 645462002614 DNA binding site [nucleotide binding] 645462002615 CAAX protease self-immunity; Region: Abi; pfam02517 645462002616 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 645462002617 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 645462002618 5-aminoimidazole-4-carboxamide ribonucleotide transformylase; Provisional; Region: PRK07106 645462002619 AICAR transformylase/IMP cyclohydrolase PurH (only IMP cyclohydrolase domain in Aful) [Nucleotide transport and metabolism]; Region: PurH; COG0138 645462002620 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; cl00120 645462002621 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 645462002622 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 645462002623 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462002624 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462002625 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462002626 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 645462002627 GIY-YIG motif/motif A; other site 645462002628 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 645462002629 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 645462002630 amidohydrolase; Region: amidohydrolases; TIGR01891 645462002631 putative metal binding site [ion binding]; other site 645462002632 NifU-like domain; Region: NifU; cl00484 645462002633 TIGR03987 family protein; Region: TIGR03987 645462002634 Transcriptional regulators [Transcription]; Region: MarR; COG1846 645462002635 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 645462002636 putative DNA binding site [nucleotide binding]; other site 645462002637 putative Zn2+ binding site [ion binding]; other site 645462002638 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 645462002639 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 645462002640 dimer interface [polypeptide binding]; other site 645462002641 conserved gate region; other site 645462002642 putative PBP binding loops; other site 645462002643 ABC-ATPase subunit interface; other site 645462002644 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 645462002645 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 645462002646 dimer interface [polypeptide binding]; other site 645462002647 conserved gate region; other site 645462002648 putative PBP binding loops; other site 645462002649 ABC-ATPase subunit interface; other site 645462002650 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 645462002651 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 645462002652 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 645462002653 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 645462002654 Walker A/P-loop; other site 645462002655 ATP binding site [chemical binding]; other site 645462002656 Q-loop/lid; other site 645462002657 ABC transporter signature motif; other site 645462002658 Walker B; other site 645462002659 D-loop; other site 645462002660 H-loop/switch region; other site 645462002661 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 645462002662 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 645462002663 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 645462002664 Walker A/P-loop; other site 645462002665 ATP binding site [chemical binding]; other site 645462002666 Q-loop/lid; other site 645462002667 ABC transporter signature motif; other site 645462002668 Walker B; other site 645462002669 D-loop; other site 645462002670 H-loop/switch region; other site 645462002671 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 645462002672 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 645462002673 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 645462002674 active site 645462002675 P-loop; other site 645462002676 phosphorylation site [posttranslational modification] 645462002677 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 645462002678 methionine cluster; other site 645462002679 PTS system, Lactose/Cellobiose specific IIA subunit; Region: PTS_IIA; pfam02255 645462002680 active site 645462002681 phosphorylation site [posttranslational modification] 645462002682 metal binding site [ion binding]; metal-binding site 645462002683 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 645462002684 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 645462002685 NAD binding site [chemical binding]; other site 645462002686 sugar binding site [chemical binding]; other site 645462002687 divalent metal binding site [ion binding]; other site 645462002688 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 645462002689 dimer interface [polypeptide binding]; other site 645462002690 hypothetical protein; Provisional; Region: PRK04143 645462002691 ADP-ribose binding site [chemical binding]; other site 645462002692 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 645462002693 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 645462002694 Helix-turn-helix domain; Region: HTH_17; pfam12728 645462002695 PBP superfamily domain; Region: PBP_like; pfam12727 645462002696 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 645462002697 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 645462002698 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 645462002699 dimer interface [polypeptide binding]; other site 645462002700 conserved gate region; other site 645462002701 putative PBP binding loops; other site 645462002702 ABC-ATPase subunit interface; other site 645462002703 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462002704 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 645462002705 Walker A/P-loop; other site 645462002706 ATP binding site [chemical binding]; other site 645462002707 Q-loop/lid; other site 645462002708 ABC transporter signature motif; other site 645462002709 Walker B; other site 645462002710 D-loop; other site 645462002711 H-loop/switch region; other site 645462002712 maltose O-acetyltransferase; Provisional; Region: PRK10092 645462002713 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 645462002714 active site 645462002715 substrate binding site [chemical binding]; other site 645462002716 trimer interface [polypeptide binding]; other site 645462002717 CoA binding site [chemical binding]; other site 645462002718 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 645462002719 zinc binding site [ion binding]; other site 645462002720 putative ligand binding site [chemical binding]; other site 645462002721 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 645462002722 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462002723 Walker A/P-loop; other site 645462002724 ATP binding site [chemical binding]; other site 645462002725 Q-loop/lid; other site 645462002726 ABC transporter signature motif; other site 645462002727 Walker B; other site 645462002728 D-loop; other site 645462002729 H-loop/switch region; other site 645462002730 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 645462002731 TM-ABC transporter signature motif; other site 645462002732 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 645462002733 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 645462002734 zinc binding site [ion binding]; other site 645462002735 putative ligand binding site [chemical binding]; other site 645462002736 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 645462002737 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462002738 Walker A/P-loop; other site 645462002739 ATP binding site [chemical binding]; other site 645462002740 Q-loop/lid; other site 645462002741 ABC transporter signature motif; other site 645462002742 Walker B; other site 645462002743 D-loop; other site 645462002744 H-loop/switch region; other site 645462002745 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 645462002746 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 645462002747 TM-ABC transporter signature motif; other site 645462002748 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 645462002749 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 645462002750 putative substrate binding site [chemical binding]; other site 645462002751 putative ATP binding site [chemical binding]; other site 645462002752 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 645462002753 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 645462002754 Probable transposase; Region: OrfB_IS605; pfam01385 645462002755 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 645462002756 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 645462002757 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 645462002758 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 645462002759 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 645462002760 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 645462002761 ligand binding site; other site 645462002762 oligomer interface; other site 645462002763 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 645462002764 dimer interface [polypeptide binding]; other site 645462002765 N-terminal domain interface [polypeptide binding]; other site 645462002766 sulfate 1 binding site; other site 645462002767 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 645462002768 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 645462002769 ligand binding site; other site 645462002770 oligomer interface; other site 645462002771 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 645462002772 dimer interface [polypeptide binding]; other site 645462002773 N-terminal domain interface [polypeptide binding]; other site 645462002774 sulfate 1 binding site; other site 645462002775 glycogen synthase; Provisional; Region: glgA; PRK00654 645462002776 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 645462002777 ADP-binding pocket [chemical binding]; other site 645462002778 homodimer interface [polypeptide binding]; other site 645462002779 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 645462002780 homodimer interface [polypeptide binding]; other site 645462002781 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 645462002782 active site pocket [active] 645462002783 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 645462002784 Alpha amylase, catalytic domain; Region: Alpha-amylase; pfam00128 645462002785 active site 645462002786 homodimer interface [polypeptide binding]; other site 645462002787 catalytic site [active] 645462002788 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 645462002789 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 645462002790 DNA-binding site [nucleotide binding]; DNA binding site 645462002791 FCD domain; Region: FCD; pfam07729 645462002792 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 645462002793 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 645462002794 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 645462002795 catalytic residue [active] 645462002796 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 645462002797 S-adenosylmethionine decarboxylase proenzyme, Bacillus form; Region: SAM_DCase_Bsu; TIGR03330 645462002798 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 645462002799 S-adenosylmethionine binding site [chemical binding]; other site 645462002800 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 645462002801 putative active site [active] 645462002802 Mn binding site [ion binding]; other site 645462002803 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 645462002804 DNA-binding site [nucleotide binding]; DNA binding site 645462002805 RNA-binding motif; other site 645462002806 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 645462002807 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 645462002808 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 645462002809 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 645462002810 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 645462002811 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 645462002812 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 645462002813 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 645462002814 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 645462002815 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 645462002816 Probable transposase; Region: OrfB_IS605; pfam01385 645462002817 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 645462002818 isoleucine-tRNA ligase, putative; Provisional; Region: PTZ00427 645462002819 Domain of unknown function (DUF1846); Region: DUF1846; pfam08903 645462002820 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 645462002821 active site 645462002822 DNA polymerase IV; Validated; Region: PRK02406 645462002823 DNA binding site [nucleotide binding] 645462002824 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 645462002825 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462002826 Walker A/P-loop; other site 645462002827 ATP binding site [chemical binding]; other site 645462002828 Q-loop/lid; other site 645462002829 ABC transporter signature motif; other site 645462002830 Walker B; other site 645462002831 D-loop; other site 645462002832 H-loop/switch region; other site 645462002833 FOG: CBS domain [General function prediction only]; Region: COG0517 645462002834 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 645462002835 ABC-type arginine/histidine transport system, permease component [Amino acid transport and metabolism]; Region: ArtM; COG4160 645462002836 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 645462002837 dimer interface [polypeptide binding]; other site 645462002838 conserved gate region; other site 645462002839 putative PBP binding loops; other site 645462002840 ABC-ATPase subunit interface; other site 645462002841 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 645462002842 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 645462002843 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 645462002844 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 645462002845 active site 645462002846 catalytic tetrad [active] 645462002847 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 645462002848 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 645462002849 UbiA family of prenyltransferases (PTases), Unknown subgroup; Region: PT_UbiA_2; cd13963 645462002850 putative active site [active] 645462002851 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 645462002852 Putative small multi-drug export protein; Region: Sm_multidrug_ex; pfam06695 645462002853 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 645462002854 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 645462002855 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 645462002856 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 645462002857 RNA binding site [nucleotide binding]; other site 645462002858 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 645462002859 RNA binding site [nucleotide binding]; other site 645462002860 core domain of the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_like; cl19107 645462002861 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 645462002862 RNA binding site [nucleotide binding]; other site 645462002863 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 645462002864 RNA binding site [nucleotide binding]; other site 645462002865 putative hydrolase; Validated; Region: PRK09248 645462002866 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 645462002867 active site 645462002868 2-isopropylmalate synthase; Validated; Region: PRK03739 645462002869 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 645462002870 active site 645462002871 catalytic residues [active] 645462002872 metal binding site [ion binding]; metal-binding site 645462002873 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 645462002874 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 645462002875 substrate binding site [chemical binding]; other site 645462002876 ligand binding site [chemical binding]; other site 645462002877 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 645462002878 substrate binding site [chemical binding]; other site 645462002879 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 645462002880 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 645462002881 CoenzymeA binding site [chemical binding]; other site 645462002882 subunit interaction site [polypeptide binding]; other site 645462002883 PHB binding site; other site 645462002884 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 645462002885 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 645462002886 catalytic residue [active] 645462002887 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 645462002888 Phosphoglycerate dehydrogenase (PGDH) NAD-binding and catalytic domains; Region: PGDH_2; cd05303 645462002889 putative ligand binding site [chemical binding]; other site 645462002890 NAD binding site [chemical binding]; other site 645462002891 dimerization interface [polypeptide binding]; other site 645462002892 catalytic site [active] 645462002893 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 645462002894 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 645462002895 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 645462002896 putative active site [active] 645462002897 heme pocket [chemical binding]; other site 645462002898 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 645462002899 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 645462002900 putative active site [active] 645462002901 heme pocket [chemical binding]; other site 645462002902 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 645462002903 heme pocket [chemical binding]; other site 645462002904 putative active site [active] 645462002905 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 645462002906 metal binding site [ion binding]; metal-binding site 645462002907 active site 645462002908 I-site; other site 645462002909 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 645462002910 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 645462002911 hypothetical protein; Provisional; Region: PRK00955 645462002912 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 645462002913 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 645462002914 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 645462002915 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 645462002916 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 645462002917 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 645462002918 dimer interface [polypeptide binding]; other site 645462002919 conserved gate region; other site 645462002920 putative PBP binding loops; other site 645462002921 ABC-ATPase subunit interface; other site 645462002922 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462002923 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 645462002924 Walker A/P-loop; other site 645462002925 ATP binding site [chemical binding]; other site 645462002926 Q-loop/lid; other site 645462002927 ABC transporter signature motif; other site 645462002928 Walker B; other site 645462002929 D-loop; other site 645462002930 H-loop/switch region; other site 645462002931 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 645462002932 putative deacylase active site [active] 645462002933 fumarate hydratase; Provisional; Region: PRK06246 645462002934 Fumarase C-terminus; Region: Fumerase_C; cl00795 645462002935 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 645462002936 Malic enzyme, N-terminal domain; Region: malic; pfam00390 645462002937 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 645462002938 putative NAD(P) binding site [chemical binding]; other site 645462002939 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 645462002940 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462002941 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 645462002942 active site 645462002943 phosphorylation site [posttranslational modification] 645462002944 intermolecular recognition site; other site 645462002945 dimerization interface [polypeptide binding]; other site 645462002946 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 645462002947 DNA binding site [nucleotide binding] 645462002948 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462002949 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 645462002950 dimer interface [polypeptide binding]; other site 645462002951 phosphorylation site [posttranslational modification] 645462002952 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 645462002953 ATP binding site [chemical binding]; other site 645462002954 Mg2+ binding site [ion binding]; other site 645462002955 G-X-G motif; other site 645462002956 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 645462002957 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 645462002958 Walker A/P-loop; other site 645462002959 ATP binding site [chemical binding]; other site 645462002960 Q-loop/lid; other site 645462002961 ABC transporter signature motif; other site 645462002962 Walker B; other site 645462002963 D-loop; other site 645462002964 H-loop/switch region; other site 645462002965 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 645462002966 FtsX-like permease family; Region: FtsX; pfam02687 645462002967 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 645462002968 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 645462002969 FtsX-like permease family; Region: FtsX; pfam02687 645462002970 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 645462002971 S1 domain; Region: S1_2; pfam13509 645462002972 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 645462002973 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 645462002974 DNA-binding site [nucleotide binding]; DNA binding site 645462002975 UTRA domain; Region: UTRA; pfam07702 645462002976 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 645462002977 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 645462002978 active site 645462002979 dimer interface [polypeptide binding]; other site 645462002980 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 645462002981 active site 645462002982 trimer interface [polypeptide binding]; other site 645462002983 allosteric site; other site 645462002984 active site lid [active] 645462002985 hexamer (dimer of trimers) interface [polypeptide binding]; other site 645462002986 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462002987 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 645462002988 active site 645462002989 phosphorylation site [posttranslational modification] 645462002990 intermolecular recognition site; other site 645462002991 dimerization interface [polypeptide binding]; other site 645462002992 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 645462002993 DNA binding site [nucleotide binding] 645462002994 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462002995 HAMP domain; Region: HAMP; pfam00672 645462002996 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 645462002997 dimer interface [polypeptide binding]; other site 645462002998 phosphorylation site [posttranslational modification] 645462002999 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 645462003000 ATP binding site [chemical binding]; other site 645462003001 Mg2+ binding site [ion binding]; other site 645462003002 G-X-G motif; other site 645462003003 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 645462003004 PAS fold; Region: PAS_3; pfam08447 645462003005 putative active site [active] 645462003006 heme pocket [chemical binding]; other site 645462003007 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 645462003008 metal binding site [ion binding]; metal-binding site 645462003009 active site 645462003010 I-site; other site 645462003011 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 645462003012 Helix-Turn-Helix DNA binding domain of the BltR transcription regulator; Region: HTH_BltR; cd04782 645462003013 DNA binding residues [nucleotide binding] 645462003014 dimer interface [polypeptide binding]; other site 645462003015 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 645462003016 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 645462003017 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 645462003018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462003019 Walker A/P-loop; other site 645462003020 ATP binding site [chemical binding]; other site 645462003021 Q-loop/lid; other site 645462003022 ABC transporter signature motif; other site 645462003023 Walker B; other site 645462003024 D-loop; other site 645462003025 H-loop/switch region; other site 645462003026 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 645462003027 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 645462003028 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 645462003029 Walker A/P-loop; other site 645462003030 ATP binding site [chemical binding]; other site 645462003031 Q-loop/lid; other site 645462003032 ABC transporter signature motif; other site 645462003033 Walker B; other site 645462003034 D-loop; other site 645462003035 H-loop/switch region; other site 645462003036 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 645462003037 putative metal binding residues [ion binding]; other site 645462003038 signature motif; other site 645462003039 dimer interface [polypeptide binding]; other site 645462003040 active site 645462003041 polyP binding site; other site 645462003042 substrate binding site [chemical binding]; other site 645462003043 acceptor-phosphate pocket; other site 645462003044 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 645462003045 CotH protein; Region: CotH; pfam08757 645462003046 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 645462003047 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 645462003048 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 645462003049 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 645462003050 non-specific DNA binding site [nucleotide binding]; other site 645462003051 salt bridge; other site 645462003052 sequence-specific DNA binding site [nucleotide binding]; other site 645462003053 Cupin domain; Region: Cupin_2; pfam07883 645462003054 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 645462003055 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 645462003056 Walker A/P-loop; other site 645462003057 ATP binding site [chemical binding]; other site 645462003058 Q-loop/lid; other site 645462003059 ABC transporter signature motif; other site 645462003060 Walker B; other site 645462003061 D-loop; other site 645462003062 H-loop/switch region; other site 645462003063 TOBE domain; Region: TOBE_2; pfam08402 645462003064 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 645462003065 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 645462003066 dimer interface [polypeptide binding]; other site 645462003067 conserved gate region; other site 645462003068 putative PBP binding loops; other site 645462003069 ABC-ATPase subunit interface; other site 645462003070 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 645462003071 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 645462003072 dimer interface [polypeptide binding]; other site 645462003073 conserved gate region; other site 645462003074 putative PBP binding loops; other site 645462003075 ABC-ATPase subunit interface; other site 645462003076 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 645462003077 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 645462003078 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 645462003079 metal binding site [ion binding]; metal-binding site 645462003080 active site 645462003081 I-site; other site 645462003082 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG5298; cd10923 645462003083 NodB motif; other site 645462003084 putative active site [active] 645462003085 putative catalytic site [active] 645462003086 putative Zn binding site [ion binding]; other site 645462003087 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 645462003088 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 645462003089 DXD motif; other site 645462003090 Bacterial cellulose synthase subunit; Region: BcsB; pfam03170 645462003091 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 645462003092 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 645462003093 active site 645462003094 homodimer interface [polypeptide binding]; other site 645462003095 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 645462003096 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462003097 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462003098 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462003099 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 645462003100 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 645462003101 active site 645462003102 metal binding site [ion binding]; metal-binding site 645462003103 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462003104 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462003105 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462003106 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 645462003107 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 645462003108 active site 645462003109 metal binding site [ion binding]; metal-binding site 645462003110 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 645462003111 Part of AAA domain; Region: AAA_19; pfam13245 645462003112 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; cl19402 645462003113 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 645462003114 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 645462003115 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; cl19914 645462003116 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 645462003117 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 645462003118 Part of AAA domain; Region: AAA_19; pfam13245 645462003119 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 645462003120 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 645462003121 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 645462003122 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 645462003123 active site 645462003124 metal binding site [ion binding]; metal-binding site 645462003125 DNA binding site [nucleotide binding] 645462003126 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 645462003127 exonuclease SbcC; Region: sbcc; TIGR00618 645462003128 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462003129 Walker A/P-loop; other site 645462003130 ATP binding site [chemical binding]; other site 645462003131 Q-loop/lid; other site 645462003132 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462003133 ABC transporter signature motif; other site 645462003134 Walker B; other site 645462003135 D-loop; other site 645462003136 H-loop/switch region; other site 645462003137 Domain of unknown function DUF21; Region: DUF21; pfam01595 645462003138 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 645462003139 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 645462003140 Transporter associated domain; Region: CorC_HlyC; smart01091 645462003141 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 645462003142 peptidase T-like protein; Region: PepT-like; TIGR01883 645462003143 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 645462003144 metal binding site [ion binding]; metal-binding site 645462003145 dimer interface [polypeptide binding]; other site 645462003146 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462003147 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462003148 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462003149 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 645462003150 active site 645462003151 metal binding site [ion binding]; metal-binding site 645462003152 homotetramer interface [polypeptide binding]; other site 645462003153 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 645462003154 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 645462003155 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 645462003156 Walker A/P-loop; other site 645462003157 ATP binding site [chemical binding]; other site 645462003158 Q-loop/lid; other site 645462003159 ABC transporter signature motif; other site 645462003160 Walker B; other site 645462003161 D-loop; other site 645462003162 H-loop/switch region; other site 645462003163 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 645462003164 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 645462003165 putative deacylase active site [active] 645462003166 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 645462003167 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 645462003168 FAD binding site [chemical binding]; other site 645462003169 homotetramer interface [polypeptide binding]; other site 645462003170 substrate binding pocket [chemical binding]; other site 645462003171 catalytic base [active] 645462003172 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 645462003173 Ligand binding site [chemical binding]; other site 645462003174 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 645462003175 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 645462003176 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 645462003177 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 645462003178 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 645462003179 substrate binding site [chemical binding]; other site 645462003180 oxyanion hole (OAH) forming residues; other site 645462003181 trimer interface [polypeptide binding]; other site 645462003182 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 645462003183 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 645462003184 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 645462003185 putative acyltransferase; Provisional; Region: PRK05790 645462003186 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 645462003187 dimer interface [polypeptide binding]; other site 645462003188 active site 645462003189 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 645462003190 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 645462003191 active site 645462003192 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 645462003193 acyl carrier protein; Provisional; Region: acpP; PRK00982 645462003194 Transcriptional regulators [Transcription]; Region: PurR; COG1609 645462003195 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 645462003196 DNA binding site [nucleotide binding] 645462003197 domain linker motif; other site 645462003198 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 645462003199 dimerization interface [polypeptide binding]; other site 645462003200 effector binding site; other site 645462003201 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 645462003202 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 645462003203 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 645462003204 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 645462003205 active site 645462003206 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 645462003207 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 645462003208 DNA-binding site [nucleotide binding]; DNA binding site 645462003209 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 645462003210 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462003211 homodimer interface [polypeptide binding]; other site 645462003212 catalytic residue [active] 645462003213 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 645462003214 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 645462003215 oligomer interface [polypeptide binding]; other site 645462003216 putative active site [active] 645462003217 metal binding site [ion binding]; metal-binding site 645462003218 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 645462003219 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 645462003220 DNA-binding site [nucleotide binding]; DNA binding site 645462003221 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 645462003222 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 645462003223 active pocket/dimerization site; other site 645462003224 active site 645462003225 phosphorylation site [posttranslational modification] 645462003226 BtpA family; Region: BtpA; cl00440 645462003227 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 645462003228 active site 645462003229 phosphorylation site [posttranslational modification] 645462003230 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 645462003231 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 645462003232 Transcriptional regulator [Transcription]; Region: LysR; COG0583 645462003233 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 645462003234 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 645462003235 dimerization interface [polypeptide binding]; other site 645462003236 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 645462003237 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 645462003238 dimer interface [polypeptide binding]; other site 645462003239 putative functional site; other site 645462003240 putative MPT binding site; other site 645462003241 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 645462003242 Walker A motif; other site 645462003243 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 645462003244 active site 645462003245 P-loop; other site 645462003246 phosphorylation site [posttranslational modification] 645462003247 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 645462003248 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 645462003249 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 645462003250 Walker A/P-loop; other site 645462003251 ATP binding site [chemical binding]; other site 645462003252 Q-loop/lid; other site 645462003253 ABC transporter signature motif; other site 645462003254 Walker B; other site 645462003255 D-loop; other site 645462003256 H-loop/switch region; other site 645462003257 Sodium/glutamate symporter; Region: Glt_symporter; cl19414 645462003258 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 645462003259 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_subfamily5; cd08019 645462003260 metal binding site [ion binding]; metal-binding site 645462003261 putative dimer interface [polypeptide binding]; other site 645462003262 zinc transporter ZupT; Provisional; Region: PRK04201 645462003263 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 645462003264 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 645462003265 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 645462003266 active site 645462003267 phosphorylation site [posttranslational modification] 645462003268 intermolecular recognition site; other site 645462003269 dimerization interface [polypeptide binding]; other site 645462003270 LytTr DNA-binding domain; Region: LytTR; smart00850 645462003271 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 645462003272 GHKL domain; Region: HATPase_c_5; pfam14501 645462003273 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 645462003274 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 645462003275 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 645462003276 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 645462003277 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 645462003278 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 645462003279 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 645462003280 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 645462003281 non-specific DNA binding site [nucleotide binding]; other site 645462003282 salt bridge; other site 645462003283 sequence-specific DNA binding site [nucleotide binding]; other site 645462003284 Cupin domain; Region: Cupin_2; pfam07883 645462003285 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 645462003286 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 645462003287 putative active site [active] 645462003288 putative metal binding site [ion binding]; other site 645462003289 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 645462003290 Iron-sulfur cluster-binding domain; Region: SPASM; pfam13186 645462003291 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 645462003292 FMN binding site [chemical binding]; other site 645462003293 dimer interface [polypeptide binding]; other site 645462003294 Nitroreductase family; Region: Nitroreductase; pfam00881 645462003295 FMN binding site [chemical binding]; other site 645462003296 dimer interface [polypeptide binding]; other site 645462003297 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 645462003298 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 645462003299 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 645462003300 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 645462003301 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 645462003302 Probable transposase; Region: OrfB_IS605; pfam01385 645462003303 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 645462003304 DHHW protein; Region: DHHW; pfam14286 645462003305 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 645462003306 DNA polymerase I; Provisional; Region: PRK05755 645462003307 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 645462003308 active site 645462003309 metal binding site 1 [ion binding]; metal-binding site 645462003310 putative 5' ssDNA interaction site; other site 645462003311 metal binding site 3; metal-binding site 645462003312 metal binding site 2 [ion binding]; metal-binding site 645462003313 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 645462003314 putative DNA binding site [nucleotide binding]; other site 645462003315 putative metal binding site [ion binding]; other site 645462003316 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 645462003317 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 645462003318 active site 645462003319 DNA binding site [nucleotide binding] 645462003320 catalytic site [active] 645462003321 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 645462003322 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 645462003323 CoA-binding site [chemical binding]; other site 645462003324 ATP-binding [chemical binding]; other site 645462003325 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 645462003326 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 645462003327 N-acetyl-D-glucosamine binding site [chemical binding]; other site 645462003328 catalytic residue [active] 645462003329 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 645462003330 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 645462003331 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 645462003332 metal-binding site [ion binding] 645462003333 S-adenosylmethionine synthetase; Provisional; Region: PTZ00104 645462003334 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 645462003335 dimer interface [polypeptide binding]; other site 645462003336 active site 645462003337 metal binding site [ion binding]; metal-binding site 645462003338 glutathione binding site [chemical binding]; other site 645462003339 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 645462003340 Bacterial SH3 domain; Region: SH3_3; pfam08239 645462003341 Bacterial SH3 domain; Region: SH3_3; pfam08239 645462003342 Bacterial SH3 domain homologues; Region: SH3b; smart00287 645462003343 Src Homology 3 domain superfamily; Region: SH3; cd00174 645462003344 peptide ligand binding site [polypeptide binding]; other site 645462003345 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 645462003346 NlpC/P60 family; Region: NLPC_P60; pfam00877 645462003347 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 645462003348 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 645462003349 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 645462003350 SLBB domain; Region: SLBB; pfam10531 645462003351 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 645462003352 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 645462003353 FMN-binding domain; Region: FMN_bind; cl01081 645462003354 electron transport complex RsxE subunit; Provisional; Region: PRK12405 645462003355 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 645462003356 ferredoxin; Validated; Region: PRK07118 645462003357 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 645462003358 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 645462003359 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 645462003360 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 645462003361 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 645462003362 active site 645462003363 dimer interface [polypeptide binding]; other site 645462003364 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 645462003365 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 645462003366 MPN+ (JAMM) motif; other site 645462003367 Zinc-binding site [ion binding]; other site 645462003368 rod shape-determining protein MreB; Provisional; Region: PRK13927 645462003369 MreB and similar proteins; Region: MreB_like; cd10225 645462003370 nucleotide binding site [chemical binding]; other site 645462003371 Mg binding site [ion binding]; other site 645462003372 putative protofilament interaction site [polypeptide binding]; other site 645462003373 RodZ interaction site [polypeptide binding]; other site 645462003374 rod shape-determining protein MreC; Provisional; Region: PRK13922 645462003375 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 645462003376 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 645462003377 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 645462003378 septum formation inhibitor; Reviewed; Region: minC; PRK00513 645462003379 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 645462003380 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 645462003381 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 645462003382 P-loop; other site 645462003383 ADP binding residues [chemical binding]; other site 645462003384 Switch I; other site 645462003385 Switch II; other site 645462003386 cell division topological specificity factor MinE; Provisional; Region: PRK13987 645462003387 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 645462003388 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 645462003389 active site 645462003390 dimer interfaces [polypeptide binding]; other site 645462003391 catalytic residues [active] 645462003392 Transcriptional regulator PadR-like family; Region: PadR; cl17335 645462003393 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 645462003394 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 645462003395 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 645462003396 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 645462003397 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 645462003398 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 645462003399 B12 binding site [chemical binding]; other site 645462003400 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 645462003401 FeS/SAM binding site; other site 645462003402 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 645462003403 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 645462003404 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 645462003405 homodimer interface [polypeptide binding]; other site 645462003406 oligonucleotide binding site [chemical binding]; other site 645462003407 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 645462003408 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 645462003409 Protein of unknown function (DUF464); Region: DUF464; pfam04327 645462003410 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 645462003411 GTPase CgtA; Reviewed; Region: obgE; PRK12297 645462003412 GTP1/OBG; Region: GTP1_OBG; pfam01018 645462003413 Obg GTPase; Region: Obg; cd01898 645462003414 G1 box; other site 645462003415 GTP/Mg2+ binding site [chemical binding]; other site 645462003416 Switch I region; other site 645462003417 G2 box; other site 645462003418 G3 box; other site 645462003419 Switch II region; other site 645462003420 G4 box; other site 645462003421 G5 box; other site 645462003422 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 645462003423 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 645462003424 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 645462003425 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 645462003426 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 645462003427 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 645462003428 active site 645462003429 DNA binding site [nucleotide binding] 645462003430 Int/Topo IB signature motif; other site 645462003431 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 645462003432 Nucleoside recognition; Region: Gate; pfam07670 645462003433 Transcriptional regulators [Transcription]; Region: FadR; COG2186 645462003434 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 645462003435 DNA-binding site [nucleotide binding]; DNA binding site 645462003436 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 645462003437 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 645462003438 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 645462003439 Ligand binding site [chemical binding]; other site 645462003440 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 645462003441 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 645462003442 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 645462003443 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 645462003444 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 645462003445 FAD binding domain; Region: FAD_binding_4; pfam01565 645462003446 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 645462003447 hypothetical protein; Provisional; Region: PRK13670 645462003448 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 645462003449 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 645462003450 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 645462003451 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 645462003452 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 645462003453 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 645462003454 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 645462003455 putative phosphate acyltransferase; Provisional; Region: PRK05331 645462003456 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 645462003457 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 645462003458 dimer interface [polypeptide binding]; other site 645462003459 active site 645462003460 CoA binding pocket [chemical binding]; other site 645462003461 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 645462003462 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 645462003463 FMN binding site [chemical binding]; other site 645462003464 substrate binding site [chemical binding]; other site 645462003465 putative catalytic residue [active] 645462003466 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 645462003467 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 645462003468 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 645462003469 NAD(P) binding site [chemical binding]; other site 645462003470 homotetramer interface [polypeptide binding]; other site 645462003471 homodimer interface [polypeptide binding]; other site 645462003472 active site 645462003473 acyl carrier protein; Provisional; Region: acpP; PRK00982 645462003474 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 645462003475 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 645462003476 dimer interface [polypeptide binding]; other site 645462003477 active site 645462003478 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 645462003479 metal binding site [ion binding]; metal-binding site 645462003480 active site 645462003481 I-site; other site 645462003482 PAS domain; Region: PAS; smart00091 645462003483 PAS domain S-box; Region: sensory_box; TIGR00229 645462003484 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 645462003485 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 645462003486 Walker A motif; other site 645462003487 ATP binding site [chemical binding]; other site 645462003488 Walker B motif; other site 645462003489 arginine finger; other site 645462003490 TSCPD domain; Region: TSCPD; cl14834 645462003491 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 645462003492 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 645462003493 catalytic triad [active] 645462003494 amino acid transporter; Region: 2A0306; TIGR00909 645462003495 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 645462003496 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 645462003497 Coenzyme A binding pocket [chemical binding]; other site 645462003498 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 645462003499 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 645462003500 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 645462003501 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 645462003502 Stage III sporulation protein AB (spore_III_AB); Region: Spore_III_AB; pfam09548 645462003503 stage III sporulation protein AC; Region: spore_III_AC; TIGR02848 645462003504 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 645462003505 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; pfam09546 645462003506 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 645462003507 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 645462003508 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 645462003509 Asp23 family; Region: Asp23; pfam03780 645462003510 transcription antitermination factor NusB; Region: nusB; TIGR01951 645462003511 metallohydrolase, glycoprotease/Kae1 family; Region: gcp_kae1; TIGR00329 645462003512 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 645462003513 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 645462003514 generic binding surface II; other site 645462003515 generic binding surface I; other site 645462003516 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 645462003517 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 645462003518 substrate binding pocket [chemical binding]; other site 645462003519 chain length determination region; other site 645462003520 substrate-Mg2+ binding site; other site 645462003521 catalytic residues [active] 645462003522 aspartate-rich region 1; other site 645462003523 active site lid residues [active] 645462003524 aspartate-rich region 2; other site 645462003525 Divergent PAP2 family; Region: DUF212; pfam02681 645462003526 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 645462003527 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 645462003528 TPP-binding site; other site 645462003529 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 645462003530 PYR/PP interface [polypeptide binding]; other site 645462003531 dimer interface [polypeptide binding]; other site 645462003532 TPP binding site [chemical binding]; other site 645462003533 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 645462003534 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 645462003535 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 645462003536 RNA binding surface [nucleotide binding]; other site 645462003537 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 645462003538 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 645462003539 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 645462003540 Walker A/P-loop; other site 645462003541 ATP binding site [chemical binding]; other site 645462003542 Q-loop/lid; other site 645462003543 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 645462003544 ABC transporter signature motif; other site 645462003545 Walker B; other site 645462003546 D-loop; other site 645462003547 H-loop/switch region; other site 645462003548 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 645462003549 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 645462003550 Coenzyme A binding pocket [chemical binding]; other site 645462003551 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 645462003552 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 645462003553 Coenzyme A binding pocket [chemical binding]; other site 645462003554 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 645462003555 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 645462003556 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 645462003557 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 645462003558 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 645462003559 active site 645462003560 phosphorylation site [posttranslational modification] 645462003561 intermolecular recognition site; other site 645462003562 dimerization interface [polypeptide binding]; other site 645462003563 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 645462003564 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4825 645462003565 Thiamine pyrophosphokinase; Region: TPK; cd07995 645462003566 active site 645462003567 Thiamine pyrophosphokinase C terminal; Region: TPPK_C; pfam12555 645462003568 Protein of unknown function (DUF3186); Region: DUF3186; pfam11382 645462003569 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 645462003570 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 645462003571 Ligand binding site; other site 645462003572 Putative Catalytic site; other site 645462003573 DXD motif; other site 645462003574 Protein of unknown function (DUF3866); Region: DUF3866; pfam12982 645462003575 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 645462003576 dimer interface [polypeptide binding]; other site 645462003577 ADP-ribose binding site [chemical binding]; other site 645462003578 active site 645462003579 nudix motif; other site 645462003580 metal binding site [ion binding]; metal-binding site 645462003581 Integral membrane protein DUF95; Region: DUF95; cl00572 645462003582 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 645462003583 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 645462003584 active site 645462003585 DNA binding site [nucleotide binding] 645462003586 Int/Topo IB signature motif; other site 645462003587 phosphopentomutase; Provisional; Region: PRK05362 645462003588 purine nucleoside phosphorylase; Provisional; Region: PRK08202 645462003589 Purine nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pnp; COG0005 645462003590 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 645462003591 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 645462003592 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 645462003593 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 645462003594 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 645462003595 dimerization interface [polypeptide binding]; other site 645462003596 Methyltransferase domain; Region: Methyltransf_31; pfam13847 645462003597 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 645462003598 S-adenosylmethionine binding site [chemical binding]; other site 645462003599 putative protease; Provisional; Region: PRK15452 645462003600 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 645462003601 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 645462003602 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 645462003603 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 645462003604 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 645462003605 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; cl02788 645462003606 Recombinase; Region: Recombinase; pfam07508 645462003607 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 645462003608 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 645462003609 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 645462003610 TPR motif; other site 645462003611 TPR repeat; Region: TPR_11; pfam13414 645462003612 binding surface 645462003613 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462003614 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462003615 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462003616 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 645462003617 Helix-turn-helix domain; Region: HTH_28; pfam13518 645462003618 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 645462003619 Helix-turn-helix domain; Region: HTH_28; pfam13518 645462003620 putative transposase OrfB; Reviewed; Region: PHA02517 645462003621 HTH-like domain; Region: HTH_21; pfam13276 645462003622 Integrase core domain; Region: rve; pfam00665 645462003623 Integrase core domain; Region: rve_2; pfam13333 645462003624 VanZ like family; Region: VanZ; pfam04892 645462003625 elongation factor P; Validated; Region: PRK00529 645462003626 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 645462003627 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 645462003628 RNA binding site [nucleotide binding]; other site 645462003629 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 645462003630 RNA binding site [nucleotide binding]; other site 645462003631 Phage terminase large subunit (GpA); Region: Terminase_GpA; cl19377 645462003632 ribonuclease III; Reviewed; Region: rnc; PRK00102 645462003633 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 645462003634 dimerization interface [polypeptide binding]; other site 645462003635 active site 645462003636 metal binding site [ion binding]; metal-binding site 645462003637 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 645462003638 dsRNA binding site [nucleotide binding]; other site 645462003639 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 645462003640 Radical SAM superfamily; Region: Radical_SAM; pfam04055 645462003641 FeS/SAM binding site; other site 645462003642 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 645462003643 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 645462003644 Walker A/P-loop; other site 645462003645 ATP binding site [chemical binding]; other site 645462003646 Q-loop/lid; other site 645462003647 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 645462003648 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 645462003649 ABC transporter signature motif; other site 645462003650 Walker B; other site 645462003651 D-loop; other site 645462003652 H-loop/switch region; other site 645462003653 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 645462003654 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 645462003655 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 645462003656 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 645462003657 putative DNA-binding protein; Validated; Region: PRK00118 645462003658 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 645462003659 signal recognition particle protein; Provisional; Region: PRK10867 645462003660 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 645462003661 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 645462003662 P loop; other site 645462003663 GTP binding site [chemical binding]; other site 645462003664 Signal peptide binding domain; Region: SRP_SPB; pfam02978 645462003665 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 645462003666 KH domain; Region: KH_4; pfam13083 645462003667 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 645462003668 RimM N-terminal domain; Region: RimM; pfam01782 645462003669 PRC-barrel domain; Region: PRC; pfam05239 645462003670 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 645462003671 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 645462003672 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 645462003673 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 645462003674 GTP/Mg2+ binding site [chemical binding]; other site 645462003675 G4 box; other site 645462003676 G5 box; other site 645462003677 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 645462003678 G1 box; other site 645462003679 G1 box; other site 645462003680 GTP/Mg2+ binding site [chemical binding]; other site 645462003681 G2 box; other site 645462003682 Switch I region; other site 645462003683 Switch I region; other site 645462003684 G2 box; other site 645462003685 G3 box; other site 645462003686 G3 box; other site 645462003687 Switch II region; other site 645462003688 Switch II region; other site 645462003689 G4 box; other site 645462003690 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 645462003691 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 645462003692 ATP cone domain; Region: ATP-cone; pfam03477 645462003693 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 645462003694 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 645462003695 active site 645462003696 dimer interface [polypeptide binding]; other site 645462003697 effector binding site; other site 645462003698 Bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 645462003699 RNA/DNA hybrid binding site [nucleotide binding]; other site 645462003700 active site 645462003701 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 645462003702 active site 645462003703 substrate binding site [chemical binding]; other site 645462003704 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 645462003705 FMN binding site [chemical binding]; other site 645462003706 putative catalytic residues [active] 645462003707 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 645462003708 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 645462003709 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 645462003710 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 645462003711 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462003712 Walker A/P-loop; other site 645462003713 ATP binding site [chemical binding]; other site 645462003714 Q-loop/lid; other site 645462003715 ABC transporter signature motif; other site 645462003716 Walker B; other site 645462003717 D-loop; other site 645462003718 H-loop/switch region; other site 645462003719 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 645462003720 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 645462003721 active site 645462003722 phosphorylation site [posttranslational modification] 645462003723 intermolecular recognition site; other site 645462003724 dimerization interface [polypeptide binding]; other site 645462003725 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 645462003726 DNA binding residues [nucleotide binding] 645462003727 dimerization interface [polypeptide binding]; other site 645462003728 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 645462003729 Histidine kinase; Region: HisKA_3; pfam07730 645462003730 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 645462003731 ATP binding site [chemical binding]; other site 645462003732 Mg2+ binding site [ion binding]; other site 645462003733 G-X-G motif; other site 645462003734 hypothetical protein; Reviewed; Region: PRK12497 645462003735 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 645462003736 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 645462003737 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 645462003738 Walker A motif; other site 645462003739 ATP binding site [chemical binding]; other site 645462003740 Walker B motif; other site 645462003741 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 645462003742 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 645462003743 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 645462003744 DNA topoisomerase I; Validated; Region: PRK05582 645462003745 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 645462003746 active site 645462003747 interdomain interaction site; other site 645462003748 putative metal-binding site [ion binding]; other site 645462003749 nucleotide binding site [chemical binding]; other site 645462003750 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 645462003751 domain I; other site 645462003752 DNA binding groove [nucleotide binding] 645462003753 phosphate binding site [ion binding]; other site 645462003754 domain II; other site 645462003755 domain III; other site 645462003756 nucleotide binding site [chemical binding]; other site 645462003757 catalytic site [active] 645462003758 domain IV; other site 645462003759 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 645462003760 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 645462003761 CodY GAF-like domain; Region: CodY; pfam06018 645462003762 transcriptional repressor CodY; Validated; Region: PRK04158 645462003763 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 645462003764 recombination factor protein RarA; Reviewed; Region: PRK13342 645462003765 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 645462003766 Walker A motif; other site 645462003767 ATP binding site [chemical binding]; other site 645462003768 Walker B motif; other site 645462003769 arginine finger; other site 645462003770 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 645462003771 Predicted acetyltransferase [General function prediction only]; Region: COG3393 645462003772 GNAT acetyltransferase; Region: GNAT_acetyltran; pfam12746 645462003773 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 645462003774 Coenzyme A binding pocket [chemical binding]; other site 645462003775 Predicted transcriptional regulator [Transcription]; Region: COG1959 645462003776 Rrf2 family protein; Region: rrf2_super; TIGR00738 645462003777 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 645462003778 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 645462003779 catalytic residue [active] 645462003780 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 645462003781 trimerization site [polypeptide binding]; other site 645462003782 active site 645462003783 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 645462003784 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 645462003785 Ligand Binding Site [chemical binding]; other site 645462003786 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 645462003787 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 645462003788 motif 1; other site 645462003789 active site 645462003790 motif 2; other site 645462003791 motif 3; other site 645462003792 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 645462003793 DHHA1 domain; Region: DHHA1; pfam02272 645462003794 hypothetical protein; Provisional; Region: PRK05473 645462003795 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl19158 645462003796 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 645462003797 Protein of unknown function (DUF1292); Region: DUF1292; pfam06949 645462003798 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 645462003799 metal binding site 2 [ion binding]; metal-binding site 645462003800 putative DNA binding helix; other site 645462003801 metal binding site 1 [ion binding]; metal-binding site 645462003802 dimer interface [polypeptide binding]; other site 645462003803 structural Zn2+ binding site [ion binding]; other site 645462003804 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 645462003805 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 645462003806 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 645462003807 RNA-metabolizing metallo-beta-lactamase; Region: RMMBL; pfam07521 645462003808 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 645462003809 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl19191 645462003810 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 645462003811 Protein of unknown function (DUF2000); Region: DUF2000; pfam09391 645462003812 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 645462003813 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 645462003814 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 645462003815 Peptidase family M50; Region: Peptidase_M50; pfam02163 645462003816 active site 645462003817 putative substrate binding region [chemical binding]; other site 645462003818 ScpA/B protein; Region: ScpA_ScpB; cl00598 645462003819 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 645462003820 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 645462003821 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 645462003822 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 645462003823 MarR family; Region: MarR_2; pfam12802 645462003824 multifunctional aminopeptidase A; Provisional; Region: PRK00913 645462003825 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 645462003826 interface (dimer of trimers) [polypeptide binding]; other site 645462003827 Substrate-binding/catalytic site; other site 645462003828 Zn-binding sites [ion binding]; other site 645462003829 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; cl02331 645462003830 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 645462003831 homodimer interface [polypeptide binding]; other site 645462003832 metal binding site [ion binding]; metal-binding site 645462003833 NAD-dependent deacetylase; Provisional; Region: PRK00481 645462003834 Bacterial SH3 domain; Region: SH3_3; pfam08239 645462003835 Bacterial SH3 domain; Region: SH3_3; pfam08239 645462003836 Bacterial SH3 domain; Region: SH3_3; pfam08239 645462003837 Bacterial SH3 domain; Region: SH3_3; pfam08239 645462003838 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 645462003839 DNA polymerase III PolC; Validated; Region: polC; PRK00448 645462003840 DNA polymerase III polC-type N-terminus I; Region: DNA_pol3_a_NI; pfam14480 645462003841 DNA polymerase III polC-type N-terminus II; Region: DNA_pol3_a_NII; pfam11490 645462003842 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 645462003843 generic binding surface II; other site 645462003844 generic binding surface I; other site 645462003845 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 645462003846 active site 645462003847 putative PHP Thumb interface [polypeptide binding]; other site 645462003848 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 645462003849 active site 645462003850 catalytic site [active] 645462003851 substrate binding site [chemical binding]; other site 645462003852 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 645462003853 Helix-hairpin-helix motif; Region: HHH_6; pfam14579 645462003854 Sm and related proteins; Region: Sm_like; cl00259 645462003855 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 645462003856 putative oligomer interface [polypeptide binding]; other site 645462003857 putative RNA binding site [nucleotide binding]; other site 645462003858 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 645462003859 NusA N-terminal domain; Region: NusA_N; pfam08529 645462003860 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 645462003861 RNA binding site [nucleotide binding]; other site 645462003862 homodimer interface [polypeptide binding]; other site 645462003863 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 645462003864 G-X-X-G motif; other site 645462003865 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 645462003866 G-X-X-G motif; other site 645462003867 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 645462003868 putative RNA binding cleft [nucleotide binding]; other site 645462003869 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 645462003870 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 645462003871 translation initiation factor IF-2; Region: IF-2; TIGR00487 645462003872 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 645462003873 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 645462003874 G1 box; other site 645462003875 putative GEF interaction site [polypeptide binding]; other site 645462003876 GTP/Mg2+ binding site [chemical binding]; other site 645462003877 Switch I region; other site 645462003878 G2 box; other site 645462003879 G3 box; other site 645462003880 Switch II region; other site 645462003881 G4 box; other site 645462003882 G5 box; other site 645462003883 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 645462003884 Translation-initiation factor 2; Region: IF-2; pfam11987 645462003885 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 645462003886 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 645462003887 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 645462003888 DHH family; Region: DHH; pfam01368 645462003889 DHHA1 domain; Region: DHHA1; pfam02272 645462003890 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 645462003891 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 645462003892 RNA binding site [nucleotide binding]; other site 645462003893 active site 645462003894 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 645462003895 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 645462003896 active site 645462003897 Riboflavin kinase; Region: Flavokinase; pfam01687 645462003898 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 645462003899 16S/18S rRNA binding site [nucleotide binding]; other site 645462003900 S13e-L30e interaction site [polypeptide binding]; other site 645462003901 25S rRNA binding site [nucleotide binding]; other site 645462003902 EDD domain protein, DegV family; Region: DegV; TIGR00762 645462003903 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 645462003904 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 645462003905 RNase E interface [polypeptide binding]; other site 645462003906 trimer interface [polypeptide binding]; other site 645462003907 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 645462003908 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 645462003909 RNase E interface [polypeptide binding]; other site 645462003910 trimer interface [polypeptide binding]; other site 645462003911 active site 645462003912 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 645462003913 putative nucleic acid binding region [nucleotide binding]; other site 645462003914 G-X-X-G motif; other site 645462003915 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 645462003916 RNA binding site [nucleotide binding]; other site 645462003917 domain interface; other site 645462003918 Putative catalytic NodB homology domain of uncharacterized protein YlxY from Bacillus subtilis and its bacterial homologs; Region: CE4_BsYlxY_like; cd10950 645462003919 NodB motif; other site 645462003920 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 645462003921 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 645462003922 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 645462003923 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 645462003924 aspartate kinase I; Reviewed; Region: PRK08210 645462003925 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 645462003926 putative catalytic residues [active] 645462003927 putative nucleotide binding site [chemical binding]; other site 645462003928 putative aspartate binding site [chemical binding]; other site 645462003929 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 645462003930 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_2; cd04937 645462003931 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 645462003932 active site 645462003933 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 645462003934 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 645462003935 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 645462003936 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 645462003937 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 645462003938 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 645462003939 active site residue [active] 645462003940 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 645462003941 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 645462003942 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 645462003943 FeS/SAM binding site; other site 645462003944 TRAM domain; Region: TRAM; cl01282 645462003945 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 645462003946 recombinase A; Provisional; Region: recA; PRK09354 645462003947 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 645462003948 hexamer interface [polypeptide binding]; other site 645462003949 Walker A motif; other site 645462003950 ATP binding site [chemical binding]; other site 645462003951 Walker B motif; other site 645462003952 ribonuclease Y; Region: RNase_Y; TIGR03319 645462003953 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 645462003954 Zn2+ binding site [ion binding]; other site 645462003955 Mg2+ binding site [ion binding]; other site 645462003956 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 645462003957 ATP binding site [chemical binding]; other site 645462003958 putative Mg++ binding site [ion binding]; other site 645462003959 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 645462003960 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 645462003961 Catalytic site [active] 645462003962 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 645462003963 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 645462003964 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 645462003965 active site 645462003966 Int/Topo IB signature motif; other site 645462003967 DNA binding site [nucleotide binding] 645462003968 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 645462003969 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 645462003970 tetramer interface [polypeptide binding]; other site 645462003971 active site 645462003972 Transcriptional regulators [Transcription]; Region: MarR; COG1846 645462003973 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 645462003974 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 645462003975 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 645462003976 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 645462003977 active site turn [active] 645462003978 phosphorylation site [posttranslational modification] 645462003979 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 645462003980 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 645462003981 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 645462003982 putative active site [active] 645462003983 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 645462003984 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 645462003985 NAD binding site [chemical binding]; other site 645462003986 sugar binding site [chemical binding]; other site 645462003987 divalent metal binding site [ion binding]; other site 645462003988 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 645462003989 dimer interface [polypeptide binding]; other site 645462003990 aspartate aminotransferase; Provisional; Region: PRK07568 645462003991 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 645462003992 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462003993 homodimer interface [polypeptide binding]; other site 645462003994 catalytic residue [active] 645462003995 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 645462003996 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 645462003997 nucleotide binding site/active site [active] 645462003998 HIT family signature motif; other site 645462003999 catalytic residue [active] 645462004000 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 645462004001 active site 645462004002 putative catalytic site [active] 645462004003 DNA binding site [nucleotide binding] 645462004004 putative phosphate binding site [ion binding]; other site 645462004005 metal binding site A [ion binding]; metal-binding site 645462004006 AP binding site [nucleotide binding]; other site 645462004007 metal binding site B [ion binding]; metal-binding site 645462004008 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 645462004009 active site 645462004010 substrate binding site [chemical binding]; other site 645462004011 catalytic site [active] 645462004012 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 645462004013 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 645462004014 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 645462004015 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 645462004016 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl19139 645462004017 Predicted transcriptional regulators [Transcription]; Region: COG1695 645462004018 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 645462004019 Protein of unknown function (DUF1700); Region: DUF1700; pfam08006 645462004020 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 645462004021 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 645462004022 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 645462004023 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 645462004024 Walker A/P-loop; other site 645462004025 ATP binding site [chemical binding]; other site 645462004026 Q-loop/lid; other site 645462004027 ABC transporter signature motif; other site 645462004028 Walker B; other site 645462004029 D-loop; other site 645462004030 H-loop/switch region; other site 645462004031 lantibiotic protection ABC transporter permease subunit, MutE/EpiE family; Region: lanti_perm_MutE; TIGR03732 645462004032 lantibiotic protection ABC transporter permease subunit, MutG family; Region: lanti_perm_MutG; TIGR03733 645462004033 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462004034 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 645462004035 dimer interface [polypeptide binding]; other site 645462004036 phosphorylation site [posttranslational modification] 645462004037 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 645462004038 ATP binding site [chemical binding]; other site 645462004039 Mg2+ binding site [ion binding]; other site 645462004040 G-X-G motif; other site 645462004041 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 645462004042 dimer interface [polypeptide binding]; other site 645462004043 pyridoxal binding site [chemical binding]; other site 645462004044 ATP binding site [chemical binding]; other site 645462004045 Putative amidase domain; Region: Amidase_6; pfam12671 645462004046 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 645462004047 DNA-binding site [nucleotide binding]; DNA binding site 645462004048 RNA-binding motif; other site 645462004049 FOG: CBS domain [General function prediction only]; Region: COG0517 645462004050 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 645462004051 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 645462004052 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 645462004053 Domain of unknown function (DUF955); Region: DUF955; cl01076 645462004054 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 645462004055 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 645462004056 non-specific DNA binding site [nucleotide binding]; other site 645462004057 salt bridge; other site 645462004058 sequence-specific DNA binding site [nucleotide binding]; other site 645462004059 Protein of unknown function (DUF2281); Region: DUF2281; cl02355 645462004060 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 645462004061 non-specific DNA binding site [nucleotide binding]; other site 645462004062 salt bridge; other site 645462004063 sequence-specific DNA binding site [nucleotide binding]; other site 645462004064 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 645462004065 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 645462004066 Phage XkdN-like protein; Region: XkdN; pfam08890 645462004067 Reovirus sigma C capsid protein; Region: Reo_sigmaC; pfam04582 645462004068 Phage-related protein [Function unknown]; Region: COG5412 645462004069 NlpC/P60 family; Region: NLPC_P60; pfam00877 645462004070 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 645462004071 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 645462004072 Baseplate J-like protein; Region: Baseplate_J; pfam04865 645462004073 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 645462004074 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 645462004075 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 645462004076 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 645462004077 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 645462004078 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 645462004079 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 645462004080 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 645462004081 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 645462004082 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 645462004083 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 645462004084 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 645462004085 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 645462004086 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 645462004087 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 645462004088 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 645462004089 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 645462004090 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 645462004091 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 645462004092 non-specific DNA binding site [nucleotide binding]; other site 645462004093 salt bridge; other site 645462004094 sequence-specific DNA binding site [nucleotide binding]; other site 645462004095 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 645462004096 non-specific DNA binding site [nucleotide binding]; other site 645462004097 salt bridge; other site 645462004098 sequence-specific DNA binding site [nucleotide binding]; other site 645462004099 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 645462004100 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 645462004101 non-specific DNA binding site [nucleotide binding]; other site 645462004102 salt bridge; other site 645462004103 sequence-specific DNA binding site [nucleotide binding]; other site 645462004104 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 645462004105 Major Facilitator Superfamily; Region: MFS_1; pfam07690 645462004106 putative substrate translocation pore; other site 645462004107 Polyhydroxyalkanoic acid inclusion protein (PhaP_Bmeg); Region: PhaP_Bmeg; cl09820 645462004108 Protein of Unknown function (DUF1690); Region: DUF1690; pfam07956 645462004109 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 645462004110 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 645462004111 glycerol kinase; Provisional; Region: glpK; PRK00047 645462004112 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 645462004113 N- and C-terminal domain interface [polypeptide binding]; other site 645462004114 active site 645462004115 MgATP binding site [chemical binding]; other site 645462004116 catalytic site [active] 645462004117 metal binding site [ion binding]; metal-binding site 645462004118 glycerol binding site [chemical binding]; other site 645462004119 homotetramer interface [polypeptide binding]; other site 645462004120 homodimer interface [polypeptide binding]; other site 645462004121 FBP binding site [chemical binding]; other site 645462004122 protein IIAGlc interface [polypeptide binding]; other site 645462004123 Predicted transcriptional regulators [Transcription]; Region: COG1725 645462004124 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 645462004125 DNA-binding site [nucleotide binding]; DNA binding site 645462004126 TrkA-C domain; Region: TrkA_C; pfam02080 645462004127 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 645462004128 putative active site [active] 645462004129 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 645462004130 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 645462004131 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 645462004132 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 645462004133 non-specific DNA binding site [nucleotide binding]; other site 645462004134 salt bridge; other site 645462004135 sequence-specific DNA binding site [nucleotide binding]; other site 645462004136 Cupin domain; Region: Cupin_2; pfam07883 645462004137 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 645462004138 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 645462004139 active site 645462004140 Protein of unknown function (DUF819); Region: DUF819; cl02317 645462004141 putative hydrolase, CocE/NonD family; Region: /NonD; TIGR00976 645462004142 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 645462004143 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 645462004144 homotrimer interaction site [polypeptide binding]; other site 645462004145 putative active site [active] 645462004146 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 645462004147 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 645462004148 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 645462004149 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 645462004150 Regulatory protein YrvL; Region: YrvL; pfam14184 645462004151 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_3; cd08770 645462004152 SxDxEG motif; other site 645462004153 putative active site [active] 645462004154 putative metal binding site [ion binding]; other site 645462004155 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 645462004156 homodimer interaction site [polypeptide binding]; other site 645462004157 cofactor binding site; other site 645462004158 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 645462004159 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 645462004160 metal binding site [ion binding]; metal-binding site 645462004161 dimer interface [polypeptide binding]; other site 645462004162 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 645462004163 dimer interface [polypeptide binding]; other site 645462004164 catalytic triad [active] 645462004165 Protein of unknown function (DUF3867); Region: DUF3867; pfam12983 645462004166 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 645462004167 catalytic triad [active] 645462004168 conserved cis-peptide bond; other site 645462004169 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 645462004170 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 645462004171 active site 645462004172 catalytic site [active] 645462004173 metal binding site [ion binding]; metal-binding site 645462004174 dimer interface [polypeptide binding]; other site 645462004175 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 645462004176 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 645462004177 acyl-activating enzyme (AAE) consensus motif; other site 645462004178 AMP binding site [chemical binding]; other site 645462004179 OPT oligopeptide transporter protein; Region: OPT; pfam03169 645462004180 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 645462004181 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 645462004182 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 645462004183 ABC transporter; Region: ABC_tran_2; pfam12848 645462004184 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 645462004185 Protein of unknown function (DUF1510); Region: DUF1510; pfam07423 645462004186 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 645462004187 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 645462004188 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 645462004189 DNA-binding site [nucleotide binding]; DNA binding site 645462004190 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 645462004191 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462004192 homodimer interface [polypeptide binding]; other site 645462004193 catalytic residue [active] 645462004194 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 645462004195 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 645462004196 ATP-grasp domain; Region: ATP-grasp_4; cl17255 645462004197 competence damage-inducible protein A; Provisional; Region: PRK00549 645462004198 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 645462004199 putative MPT binding site; other site 645462004200 Competence-damaged protein; Region: CinA; pfam02464 645462004201 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 645462004202 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 645462004203 active site 645462004204 motif I; other site 645462004205 motif II; other site 645462004206 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 645462004207 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 645462004208 PAS domain; Region: PAS_9; pfam13426 645462004209 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 645462004210 putative active site [active] 645462004211 heme pocket [chemical binding]; other site 645462004212 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 645462004213 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 645462004214 Walker A motif; other site 645462004215 ATP binding site [chemical binding]; other site 645462004216 Walker B motif; other site 645462004217 arginine finger; other site 645462004218 EamA-like transporter family; Region: EamA; pfam00892 645462004219 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 645462004220 EamA-like transporter family; Region: EamA; pfam00892 645462004221 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 645462004222 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 645462004223 Protein of unknown function, DUF606; Region: DUF606; cl01273 645462004224 Predicted ATPases of PP-loop superfamily [General function prediction only]; Region: COG2102 645462004225 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 645462004226 Ligand Binding Site [chemical binding]; other site 645462004227 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 645462004228 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 645462004229 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 645462004230 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 645462004231 PAS fold; Region: PAS_3; pfam08447 645462004232 putative active site [active] 645462004233 heme pocket [chemical binding]; other site 645462004234 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 645462004235 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 645462004236 metal binding site [ion binding]; metal-binding site 645462004237 active site 645462004238 I-site; other site 645462004239 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 645462004240 metal binding site [ion binding]; metal-binding site 645462004241 active site 645462004242 I-site; other site 645462004243 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 645462004244 metal binding site [ion binding]; metal-binding site 645462004245 active site 645462004246 I-site; other site 645462004247 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 645462004248 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 645462004249 PAS fold; Region: PAS_3; pfam08447 645462004250 putative active site [active] 645462004251 heme pocket [chemical binding]; other site 645462004252 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 645462004253 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 645462004254 DNA binding residues [nucleotide binding] 645462004255 dimer interface [polypeptide binding]; other site 645462004256 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 645462004257 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 645462004258 MgtC family; Region: MgtC; pfam02308 645462004259 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 645462004260 catalytic triad [active] 645462004261 conserved cis-peptide bond; other site 645462004262 Predicted transcriptional regulators [Transcription]; Region: COG1733 645462004263 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 645462004264 Predicted acetyltransferase [General function prediction only]; Region: COG3393 645462004265 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 645462004266 Putative lysophospholipase; Region: Hydrolase_4; cl19140 645462004267 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 645462004268 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 645462004269 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 645462004270 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 645462004271 NodB motif; other site 645462004272 active site 645462004273 catalytic site [active] 645462004274 Cd binding site [ion binding]; other site 645462004275 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 645462004276 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 645462004277 active site 645462004278 catalytic site [active] 645462004279 substrate binding site [chemical binding]; other site 645462004280 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 645462004281 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 645462004282 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]; Region: COG3341 645462004283 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 645462004284 Bacterial RNase HI containing a hybrid binding domain (HBD) at the N-terminus; Region: RNase_HI_bacteria_like; cd09277 645462004285 RNA/DNA hybrid binding site [nucleotide binding]; other site 645462004286 active site 645462004287 peroxiredoxin; Provisional; Region: PRK13189 645462004288 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 645462004289 dimer interface [polypeptide binding]; other site 645462004290 decamer (pentamer of dimers) interface [polypeptide binding]; other site 645462004291 catalytic triad [active] 645462004292 Glyco_18 domain; Region: Glyco_18; smart00636 645462004293 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 645462004294 active site 645462004295 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 645462004296 VanW like protein; Region: VanW; pfam04294 645462004297 G5 domain; Region: G5; pfam07501 645462004298 Largest subunit of RNA polymerase (RNAP), N-terminal domain; Region: RNAP_largest_subunit_N; cl19114 645462004299 hypothetical protein; Provisional; Region: PHA02938 645462004300 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 645462004301 IncA protein; Region: IncA; pfam04156 645462004302 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 645462004303 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 645462004304 binding surface 645462004305 TPR motif; other site 645462004306 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 645462004307 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 645462004308 Uncharacterized conserved protein [Function unknown]; Region: COG1284 645462004309 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 645462004310 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 645462004311 MORN repeat; Region: MORN; cl14787 645462004312 MORN repeat; Region: MORN; cl14787 645462004313 CAP-associated N-terminal; Region: CAP_assoc_N; pfam14504 645462004314 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 645462004315 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 645462004316 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 645462004317 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 645462004318 NodB motif; other site 645462004319 active site 645462004320 catalytic site [active] 645462004321 metal binding site [ion binding]; metal-binding site 645462004322 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 645462004323 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 645462004324 glutamine binding [chemical binding]; other site 645462004325 catalytic triad [active] 645462004326 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 645462004327 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 645462004328 chorismate binding enzyme; Region: Chorismate_bind; cl10555 645462004329 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 645462004330 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 645462004331 homodimer interface [polypeptide binding]; other site 645462004332 substrate-cofactor binding pocket; other site 645462004333 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462004334 catalytic residue [active] 645462004335 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 645462004336 active site 645462004337 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 645462004338 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 645462004339 substrate binding pocket [chemical binding]; other site 645462004340 dimer interface [polypeptide binding]; other site 645462004341 inhibitor binding site; inhibition site 645462004342 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 645462004343 homooctamer interface [polypeptide binding]; other site 645462004344 active site 645462004345 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 645462004346 catalytic center binding site [active] 645462004347 ATP binding site [chemical binding]; other site 645462004348 DAHP synthetase I family; Region: DAHP_synth_1; cl17225 645462004349 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 645462004350 DNA primase; Validated; Region: dnaG; PRK05667 645462004351 CHC2 zinc finger; Region: zf-CHC2; pfam01807 645462004352 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 645462004353 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 645462004354 active site 645462004355 metal binding site [ion binding]; metal-binding site 645462004356 interdomain interaction site; other site 645462004357 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 645462004358 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 645462004359 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 645462004360 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 645462004361 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 645462004362 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 645462004363 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 645462004364 DNA binding residues [nucleotide binding] 645462004365 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 645462004366 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 645462004367 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 645462004368 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 645462004369 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 645462004370 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 645462004371 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 645462004372 Zn2+ binding site [ion binding]; other site 645462004373 Mg2+ binding site [ion binding]; other site 645462004374 Protein of unknown function (DUF1648); Region: DUF1648; cl19856 645462004375 Predicted transcriptional regulators [Transcription]; Region: COG1725 645462004376 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 645462004377 DNA-binding site [nucleotide binding]; DNA binding site 645462004378 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462004379 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 645462004380 active site 645462004381 phosphorylation site [posttranslational modification] 645462004382 intermolecular recognition site; other site 645462004383 dimerization interface [polypeptide binding]; other site 645462004384 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 645462004385 DNA binding site [nucleotide binding] 645462004386 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462004387 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 645462004388 dimer interface [polypeptide binding]; other site 645462004389 phosphorylation site [posttranslational modification] 645462004390 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 645462004391 ATP binding site [chemical binding]; other site 645462004392 Mg2+ binding site [ion binding]; other site 645462004393 G-X-G motif; other site 645462004394 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 645462004395 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 645462004396 Walker A/P-loop; other site 645462004397 ATP binding site [chemical binding]; other site 645462004398 Q-loop/lid; other site 645462004399 ABC transporter signature motif; other site 645462004400 Walker B; other site 645462004401 D-loop; other site 645462004402 H-loop/switch region; other site 645462004403 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 645462004404 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 645462004405 FtsX-like permease family; Region: FtsX; pfam02687 645462004406 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 645462004407 FtsX-like permease family; Region: FtsX; pfam02687 645462004408 CRISPR/Cas system-associated transcriptional regulator CasRa; Region: CasRa_I-A; cd09655 645462004409 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 645462004410 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 645462004411 Beta-lactamase; Region: Beta-lactamase; pfam00144 645462004412 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462004413 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462004414 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462004415 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 645462004416 active site residue [active] 645462004417 Predicted membrane protein [Function unknown]; Region: COG1511 645462004418 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; cl19580 645462004419 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 645462004420 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 645462004421 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 645462004422 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462004423 Walker A/P-loop; other site 645462004424 ATP binding site [chemical binding]; other site 645462004425 Q-loop/lid; other site 645462004426 ABC transporter signature motif; other site 645462004427 Walker B; other site 645462004428 D-loop; other site 645462004429 H-loop/switch region; other site 645462004430 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 645462004431 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 645462004432 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 645462004433 Walker A/P-loop; other site 645462004434 ATP binding site [chemical binding]; other site 645462004435 Q-loop/lid; other site 645462004436 ABC transporter signature motif; other site 645462004437 Walker B; other site 645462004438 D-loop; other site 645462004439 H-loop/switch region; other site 645462004440 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 645462004441 Rubredoxin; Region: Rubredoxin; pfam00301 645462004442 iron binding site [ion binding]; other site 645462004443 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 645462004444 Rubrerythrin [Energy production and conversion]; Region: COG1592 645462004445 diiron binding motif [ion binding]; other site 645462004446 CAAX protease self-immunity; Region: Abi; pfam02517 645462004447 Dienelactone hydrolase family; Region: DLH; pfam01738 645462004448 FeoA domain; Region: FeoA; pfam04023 645462004449 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 645462004450 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 645462004451 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 645462004452 G1 box; other site 645462004453 GTP/Mg2+ binding site [chemical binding]; other site 645462004454 Switch I region; other site 645462004455 G2 box; other site 645462004456 G3 box; other site 645462004457 Switch II region; other site 645462004458 G4 box; other site 645462004459 G5 box; other site 645462004460 Nucleoside recognition; Region: Gate; pfam07670 645462004461 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 645462004462 Nucleoside recognition; Region: Gate; pfam07670 645462004463 Virus attachment protein p12 family; Region: P12; pfam12669 645462004464 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 645462004465 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 645462004466 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 645462004467 dimer interface [polypeptide binding]; other site 645462004468 conserved gate region; other site 645462004469 putative PBP binding loops; other site 645462004470 ABC-ATPase subunit interface; other site 645462004471 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 645462004472 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 645462004473 Walker A/P-loop; other site 645462004474 ATP binding site [chemical binding]; other site 645462004475 Q-loop/lid; other site 645462004476 ABC transporter signature motif; other site 645462004477 Walker B; other site 645462004478 D-loop; other site 645462004479 H-loop/switch region; other site 645462004480 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 645462004481 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 645462004482 substrate binding pocket [chemical binding]; other site 645462004483 membrane-bound complex binding site; other site 645462004484 hinge residues; other site 645462004485 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 645462004486 Predicted transcriptional regulator [Transcription]; Region: COG2378 645462004487 HTH domain; Region: HTH_11; pfam08279 645462004488 WYL domain; Region: WYL; pfam13280 645462004489 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 645462004490 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 645462004491 Walker A/P-loop; other site 645462004492 ATP binding site [chemical binding]; other site 645462004493 Q-loop/lid; other site 645462004494 ABC transporter signature motif; other site 645462004495 Walker B; other site 645462004496 D-loop; other site 645462004497 H-loop/switch region; other site 645462004498 NIL domain; Region: NIL; pfam09383 645462004499 ectoine/hydroxyectoine ABC transporter, permease protein EhuD; Region: ectoine_ehuD; TIGR03003 645462004500 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 645462004501 dimer interface [polypeptide binding]; other site 645462004502 conserved gate region; other site 645462004503 putative PBP binding loops; other site 645462004504 ABC-ATPase subunit interface; other site 645462004505 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 645462004506 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 645462004507 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 645462004508 PAS domain; Region: PAS_8; pfam13188 645462004509 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462004510 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 645462004511 dimer interface [polypeptide binding]; other site 645462004512 phosphorylation site [posttranslational modification] 645462004513 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 645462004514 ATP binding site [chemical binding]; other site 645462004515 Mg2+ binding site [ion binding]; other site 645462004516 G-X-G motif; other site 645462004517 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 645462004518 active site 645462004519 DNA binding site [nucleotide binding] 645462004520 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 645462004521 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 645462004522 non-specific DNA binding site [nucleotide binding]; other site 645462004523 salt bridge; other site 645462004524 sequence-specific DNA binding site [nucleotide binding]; other site 645462004525 Cupin domain; Region: Cupin_2; pfam07883 645462004526 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 645462004527 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 645462004528 Pyrroline-5-carboxylate reductase dimerization; Region: P5CR_dimer; pfam14748 645462004529 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 645462004530 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 645462004531 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 645462004532 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 645462004533 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 645462004534 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 645462004535 DNA binding residues [nucleotide binding] 645462004536 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 645462004537 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 645462004538 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 645462004539 intersubunit interface [polypeptide binding]; other site 645462004540 active site 645462004541 catalytic residue [active] 645462004542 Predicted transcriptional regulators [Transcription]; Region: COG1725 645462004543 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 645462004544 DNA-binding site [nucleotide binding]; DNA binding site 645462004545 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 645462004546 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 645462004547 Walker A/P-loop; other site 645462004548 ATP binding site [chemical binding]; other site 645462004549 Q-loop/lid; other site 645462004550 ABC transporter signature motif; other site 645462004551 Walker B; other site 645462004552 D-loop; other site 645462004553 H-loop/switch region; other site 645462004554 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 645462004555 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 645462004556 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 645462004557 catalytic residues [active] 645462004558 4Fe-4S binding domain; Region: Fer4_5; pfam12801 645462004559 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 645462004560 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 645462004561 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 645462004562 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 645462004563 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 645462004564 Pantoate-beta-alanine ligase; Region: PanC; cd00560 645462004565 active site 645462004566 ATP-binding site [chemical binding]; other site 645462004567 pantoate-binding site; other site 645462004568 HXXH motif; other site 645462004569 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 645462004570 oligomerization interface [polypeptide binding]; other site 645462004571 active site 645462004572 metal binding site [ion binding]; metal-binding site 645462004573 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 645462004574 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 645462004575 PAS fold; Region: PAS_3; pfam08447 645462004576 putative active site [active] 645462004577 heme pocket [chemical binding]; other site 645462004578 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 645462004579 metal binding site [ion binding]; metal-binding site 645462004580 active site 645462004581 I-site; other site 645462004582 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 645462004583 Helix-Turn-Helix DNA binding domain of the BltR transcription regulator; Region: HTH_BltR; cd04782 645462004584 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 645462004585 DNA binding residues [nucleotide binding] 645462004586 dimer interface [polypeptide binding]; other site 645462004587 Transcriptional regulator, effector-binding domain/component [Transcription / Signal transduction mechanisms]; Region: COG4978 645462004588 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 645462004589 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 645462004590 G1 box; other site 645462004591 GTP/Mg2+ binding site [chemical binding]; other site 645462004592 Switch I region; other site 645462004593 G2 box; other site 645462004594 G3 box; other site 645462004595 Switch II region; other site 645462004596 G4 box; other site 645462004597 G5 box; other site 645462004598 Nucleoside recognition; Region: Gate; pfam07670 645462004599 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 645462004600 Nucleoside recognition; Region: Gate; pfam07670 645462004601 FeoA domain; Region: FeoA; cl00838 645462004602 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 645462004603 Coenzyme A binding pocket [chemical binding]; other site 645462004604 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 645462004605 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 645462004606 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 645462004607 active site 645462004608 HIGH motif; other site 645462004609 dimer interface [polypeptide binding]; other site 645462004610 KMSKS motif; other site 645462004611 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 645462004612 RNA binding surface [nucleotide binding]; other site 645462004613 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 645462004614 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 645462004615 NodB motif; other site 645462004616 active site 645462004617 catalytic site [active] 645462004618 Zn binding site [ion binding]; other site 645462004619 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 645462004620 EamA-like transporter family; Region: EamA; pfam00892 645462004621 EamA-like transporter family; Region: EamA; pfam00892 645462004622 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 645462004623 Rubredoxin; Region: Rubredoxin; pfam00301 645462004624 iron binding site [ion binding]; other site 645462004625 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 645462004626 Rubrerythrin [Energy production and conversion]; Region: COG1592 645462004627 diiron binding motif [ion binding]; other site 645462004628 Domain of unknown function (DUF362); Region: DUF362; cl19822 645462004629 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 645462004630 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 645462004631 dihydroorotase; Validated; Region: pyrC; PRK09357 645462004632 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 645462004633 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 645462004634 active site 645462004635 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 645462004636 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 645462004637 FtsX-like permease family; Region: FtsX; pfam02687 645462004638 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 645462004639 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 645462004640 Walker A/P-loop; other site 645462004641 ATP binding site [chemical binding]; other site 645462004642 Q-loop/lid; other site 645462004643 ABC transporter signature motif; other site 645462004644 Walker B; other site 645462004645 D-loop; other site 645462004646 H-loop/switch region; other site 645462004647 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 645462004648 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 645462004649 HlyD family secretion protein; Region: HlyD_3; pfam13437 645462004650 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462004651 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 645462004652 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 645462004653 ATP binding site [chemical binding]; other site 645462004654 Mg2+ binding site [ion binding]; other site 645462004655 G-X-G motif; other site 645462004656 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462004657 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 645462004658 active site 645462004659 phosphorylation site [posttranslational modification] 645462004660 intermolecular recognition site; other site 645462004661 dimerization interface [polypeptide binding]; other site 645462004662 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 645462004663 DNA binding site [nucleotide binding] 645462004664 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 645462004665 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 645462004666 Walker A/P-loop; other site 645462004667 ATP binding site [chemical binding]; other site 645462004668 Q-loop/lid; other site 645462004669 ABC transporter signature motif; other site 645462004670 Walker B; other site 645462004671 D-loop; other site 645462004672 H-loop/switch region; other site 645462004673 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 645462004674 FtsX-like permease family; Region: FtsX; pfam02687 645462004675 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 645462004676 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 645462004677 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 645462004678 active site residue [active] 645462004679 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 645462004680 active site residue [active] 645462004681 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 645462004682 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 645462004683 FAD binding pocket [chemical binding]; other site 645462004684 FAD binding motif [chemical binding]; other site 645462004685 phosphate binding motif [ion binding]; other site 645462004686 beta-alpha-beta structure motif; other site 645462004687 NAD binding pocket [chemical binding]; other site 645462004688 Iron coordination center [ion binding]; other site 645462004689 putative oxidoreductase; Provisional; Region: PRK12831 645462004690 Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster; Region: Fer4_20; pfam14691 645462004691 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 645462004692 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 645462004693 Cache domain; Region: Cache_1; pfam02743 645462004694 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 645462004695 metal binding site [ion binding]; metal-binding site 645462004696 active site 645462004697 I-site; other site 645462004698 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 645462004699 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 645462004700 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 645462004701 Walker A/P-loop; other site 645462004702 ATP binding site [chemical binding]; other site 645462004703 Q-loop/lid; other site 645462004704 ABC transporter signature motif; other site 645462004705 Walker B; other site 645462004706 D-loop; other site 645462004707 H-loop/switch region; other site 645462004708 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 645462004709 FtsX-like permease family; Region: FtsX; pfam02687 645462004710 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 645462004711 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 645462004712 Fic family protein [Function unknown]; Region: COG3177 645462004713 Fic/DOC family; Region: Fic; pfam02661 645462004714 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 645462004715 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 645462004716 Haemolysin-III related; Region: HlyIII; cl03831 645462004717 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 645462004718 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 645462004719 Histidyl-tRNA synthetase; Region: tRNA-synt_His; pfam13393 645462004720 motif 1; other site 645462004721 dimer interface [polypeptide binding]; other site 645462004722 active site 645462004723 motif 2; other site 645462004724 motif 3; other site 645462004725 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 645462004726 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 645462004727 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 645462004728 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 645462004729 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462004730 homodimer interface [polypeptide binding]; other site 645462004731 catalytic residue [active] 645462004732 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 645462004733 putative active site pocket [active] 645462004734 4-fold oligomerization interface [polypeptide binding]; other site 645462004735 metal binding residues [ion binding]; metal-binding site 645462004736 3-fold/trimer interface [polypeptide binding]; other site 645462004737 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13142 645462004738 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 645462004739 putative active site [active] 645462004740 oxyanion strand; other site 645462004741 catalytic triad [active] 645462004742 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 645462004743 catalytic residues [active] 645462004744 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 645462004745 substrate binding site [chemical binding]; other site 645462004746 glutamase interaction surface [polypeptide binding]; other site 645462004747 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 645462004748 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 645462004749 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 645462004750 metal binding site [ion binding]; metal-binding site 645462004751 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 645462004752 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 645462004753 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 645462004754 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 645462004755 NodB motif; other site 645462004756 active site 645462004757 catalytic site [active] 645462004758 Zn binding site [ion binding]; other site 645462004759 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 645462004760 SurA N-terminal domain; Region: SurA_N_3; cl07813 645462004761 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 645462004762 RNA polymerase sigma-70 factor, TIGR02954 family; Region: Sig70_famx3 645462004763 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 645462004764 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 645462004765 DNA binding residues [nucleotide binding] 645462004766 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 645462004767 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 645462004768 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 645462004769 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 645462004770 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 645462004771 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 645462004772 XdhC Rossmann domain; Region: XdhC_C; pfam13478 645462004773 Protein of unknown function DUF45; Region: DUF45; pfam01863 645462004774 ACT domain; Region: ACT_5; pfam13710 645462004775 ketol-acid reductoisomerase; Provisional; Region: PRK05479 645462004776 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 645462004777 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 645462004778 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 645462004779 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 645462004780 PYR/PP interface [polypeptide binding]; other site 645462004781 dimer interface [polypeptide binding]; other site 645462004782 TPP binding site [chemical binding]; other site 645462004783 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 645462004784 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 645462004785 TPP-binding site [chemical binding]; other site 645462004786 dimer interface [polypeptide binding]; other site 645462004787 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 645462004788 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 645462004789 Int/Topo IB signature motif; other site 645462004790 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 645462004791 C-terminal putative kinase domain of FAM20 (family with sequence similarity 20), Drosophila Four-jointed (Fj), and related proteins; Region: FAM20_C_like; cl05973 645462004792 HipA-like C-terminal domain; Region: HipA_C; pfam07804 645462004793 putative catalytic residues [active] 645462004794 putative catalytic loop [active] 645462004795 Domain of unknown function (DUF955); Region: DUF955; pfam06114 645462004796 Prophage antirepressor [Transcription]; Region: COG3617 645462004797 BRO family, N-terminal domain; Region: Bro-N; smart01040 645462004798 ORF6N domain; Region: ORF6N; pfam10543 645462004799 Protein of unknown function (DUF2800); Region: DUF2800; pfam10926 645462004800 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 645462004801 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 645462004802 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 645462004803 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_A; cd08642 645462004804 active site 645462004805 DNA binding site [nucleotide binding] 645462004806 catalytic site [active] 645462004807 Virulence-associated protein E; Region: VirE; pfam05272 645462004808 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 645462004809 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 645462004810 ATP binding site [chemical binding]; other site 645462004811 putative Mg++ binding site [ion binding]; other site 645462004812 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 645462004813 nucleotide binding region [chemical binding]; other site 645462004814 ATP-binding site [chemical binding]; other site 645462004815 DNA binding residues [nucleotide binding] 645462004816 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 645462004817 BRO family, N-terminal domain; Region: Bro-N; smart01040 645462004818 Uncharacterized conserved protein [Function unknown]; Region: COG5484 645462004819 Helix-turn-helix domain; Region: HTH_28; pfam13518 645462004820 Phage terminase large subunit; Region: Terminase_3; cl12054 645462004821 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 645462004822 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 645462004823 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 645462004824 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 645462004825 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 645462004826 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 645462004827 Phage XkdN-like protein; Region: XkdN; pfam08890 645462004828 BRO family, N-terminal domain; Region: Bro-N; cl10591 645462004829 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 645462004830 Short C-terminal domain; Region: SHOCT; pfam09851 645462004831 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cl19050 645462004832 Phage-related minor tail protein [Function unknown]; Region: COG5281 645462004833 tape measure domain; Region: tape_meas_nterm; TIGR02675 645462004834 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 645462004835 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 645462004836 NlpC/P60 family; Region: NLPC_P60; pfam00877 645462004837 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 645462004838 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 645462004839 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 645462004840 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 645462004841 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 645462004842 TcdA/TcdB pore forming domain; Region: TcdA_TcdB_pore; pfam12920 645462004843 Viral coat protein; Region: Flexi_CP; pfam00286 645462004844 Abi-like protein; Region: Abi_2; pfam07751 645462004845 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 645462004846 active site 645462004847 metal binding site [ion binding]; metal-binding site 645462004848 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cd00116 645462004849 Leucine-rich repeats; other site 645462004850 Substrate binding site [chemical binding]; other site 645462004851 Leucine rich repeat; Region: LRR_8; pfam13855 645462004852 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462004853 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462004854 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462004855 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 645462004856 Uncharacterized conserved protein [Function unknown]; Region: COG1633 645462004857 dimanganese center [ion binding]; other site 645462004858 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 645462004859 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 645462004860 catalytic residues [active] 645462004861 Transcriptional regulators [Transcription]; Region: MarR; COG1846 645462004862 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 645462004863 Probable transposase; Region: OrfB_IS605; pfam01385 645462004864 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 645462004865 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 645462004866 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 645462004867 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 645462004868 non-specific DNA binding site [nucleotide binding]; other site 645462004869 salt bridge; other site 645462004870 sequence-specific DNA binding site [nucleotide binding]; other site 645462004871 Tetratricopeptide repeat; Region: TPR_12; pfam13424 645462004872 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 645462004873 Domain of unknown function (DUF348); Region: DUF348; pfam03990 645462004874 G5 domain; Region: G5; pfam07501 645462004875 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 645462004876 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 645462004877 active site 645462004878 catalytic triad [active] 645462004879 oxyanion hole [active] 645462004880 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 645462004881 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 645462004882 active site 645462004883 substrate binding site [chemical binding]; other site 645462004884 metal binding site [ion binding]; metal-binding site 645462004885 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 645462004886 PAS fold; Region: PAS_4; pfam08448 645462004887 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462004888 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 645462004889 dimer interface [polypeptide binding]; other site 645462004890 phosphorylation site [posttranslational modification] 645462004891 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 645462004892 ATP binding site [chemical binding]; other site 645462004893 Mg2+ binding site [ion binding]; other site 645462004894 G-X-G motif; other site 645462004895 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 645462004896 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 645462004897 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 645462004898 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 645462004899 histidinol dehydrogenase; Region: hisD; TIGR00069 645462004900 NAD binding site [chemical binding]; other site 645462004901 dimerization interface [polypeptide binding]; other site 645462004902 product binding site; other site 645462004903 substrate binding site [chemical binding]; other site 645462004904 zinc binding site [ion binding]; other site 645462004905 catalytic residues [active] 645462004906 Putative lysophospholipase; Region: Hydrolase_4; cl19140 645462004907 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 645462004908 Mor transcription activator family; Region: Mor; cl02360 645462004909 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 645462004910 nucleotide binding site [chemical binding]; other site 645462004911 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 645462004912 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 645462004913 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 645462004914 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 645462004915 nucleotide binding site [chemical binding]; other site 645462004916 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 645462004917 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 645462004918 Walker A/P-loop; other site 645462004919 ATP binding site [chemical binding]; other site 645462004920 Q-loop/lid; other site 645462004921 ABC transporter signature motif; other site 645462004922 Walker B; other site 645462004923 D-loop; other site 645462004924 H-loop/switch region; other site 645462004925 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 645462004926 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 645462004927 TM-ABC transporter signature motif; other site 645462004928 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 645462004929 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 645462004930 ligand binding site [chemical binding]; other site 645462004931 Uncharacterized conserved protein [Function unknown]; Region: COG1284 645462004932 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 645462004933 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 645462004934 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 645462004935 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 645462004936 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 645462004937 potassium-transporting ATPase subunit C; Provisional; Region: PRK13995 645462004938 cysteine synthase; Region: PLN02565 645462004939 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 645462004940 dimer interface [polypeptide binding]; other site 645462004941 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462004942 catalytic residue [active] 645462004943 serine O-acetyltransferase; Region: cysE; TIGR01172 645462004944 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 645462004945 trimer interface [polypeptide binding]; other site 645462004946 active site 645462004947 substrate binding site [chemical binding]; other site 645462004948 CoA binding site [chemical binding]; other site 645462004949 methionine aminopeptidase; Provisional; Region: PRK12318 645462004950 SEC-C motif; Region: SEC-C; pfam02810 645462004951 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 645462004952 active site 645462004953 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 645462004954 GIY-YIG motif/motif A; other site 645462004955 putative active site [active] 645462004956 putative metal binding site [ion binding]; other site 645462004957 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 645462004958 dimer interface [polypeptide binding]; other site 645462004959 substrate binding site [chemical binding]; other site 645462004960 ATP binding site [chemical binding]; other site 645462004961 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 645462004962 substrate binding site [chemical binding]; other site 645462004963 multimerization interface [polypeptide binding]; other site 645462004964 ATP binding site [chemical binding]; other site 645462004965 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 645462004966 thiamine phosphate binding site [chemical binding]; other site 645462004967 active site 645462004968 pyrophosphate binding site [ion binding]; other site 645462004969 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 645462004970 active site 645462004971 P-loop; other site 645462004972 phosphorylation site [posttranslational modification] 645462004973 ABC-2 type transporter; Region: ABC2_membrane; cl17235 645462004974 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 645462004975 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 645462004976 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462004977 Walker A/P-loop; other site 645462004978 ATP binding site [chemical binding]; other site 645462004979 Q-loop/lid; other site 645462004980 ABC transporter signature motif; other site 645462004981 Walker B; other site 645462004982 D-loop; other site 645462004983 H-loop/switch region; other site 645462004984 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 645462004985 Predicted transcriptional regulators [Transcription]; Region: COG1725 645462004986 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 645462004987 DNA-binding site [nucleotide binding]; DNA binding site 645462004988 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 645462004989 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 645462004990 Walker A/P-loop; other site 645462004991 ATP binding site [chemical binding]; other site 645462004992 Q-loop/lid; other site 645462004993 ABC transporter signature motif; other site 645462004994 Walker B; other site 645462004995 D-loop; other site 645462004996 H-loop/switch region; other site 645462004997 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 645462004998 Amidohydrolase; Region: Amidohydro_5; pfam13594 645462004999 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 645462005000 active site 645462005001 Protein of unknown function (DUF1320); Region: DUF1320; cl01818 645462005002 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 645462005003 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462005004 Walker A/P-loop; other site 645462005005 ATP binding site [chemical binding]; other site 645462005006 Q-loop/lid; other site 645462005007 ABC transporter signature motif; other site 645462005008 Walker B; other site 645462005009 D-loop; other site 645462005010 H-loop/switch region; other site 645462005011 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 645462005012 Acyltransferase family; Region: Acyl_transf_3; cl19154 645462005013 CAAX protease self-immunity; Region: Abi; pfam02517 645462005014 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 645462005015 metal binding site [ion binding]; metal-binding site 645462005016 active site 645462005017 I-site; other site 645462005018 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 645462005019 Predicted transcriptional regulators [Transcription]; Region: COG1725 645462005020 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 645462005021 DNA-binding site [nucleotide binding]; DNA binding site 645462005022 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 645462005023 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 645462005024 Walker A/P-loop; other site 645462005025 ATP binding site [chemical binding]; other site 645462005026 Q-loop/lid; other site 645462005027 ABC transporter signature motif; other site 645462005028 Walker B; other site 645462005029 D-loop; other site 645462005030 H-loop/switch region; other site 645462005031 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 645462005032 Major Facilitator Superfamily; Region: MFS_1; pfam07690 645462005033 putative substrate translocation pore; other site 645462005034 Mechanosensitive ion channel; Region: MS_channel; pfam00924 645462005035 Predicted membrane protein [Function unknown]; Region: COG3212 645462005036 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 645462005037 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 645462005038 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 645462005039 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 645462005040 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 645462005041 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 645462005042 iron binding site [ion binding]; other site 645462005043 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 645462005044 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 645462005045 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462005046 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 645462005047 active site 645462005048 phosphorylation site [posttranslational modification] 645462005049 intermolecular recognition site; other site 645462005050 dimerization interface [polypeptide binding]; other site 645462005051 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 645462005052 DNA binding site [nucleotide binding] 645462005053 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462005054 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 645462005055 dimer interface [polypeptide binding]; other site 645462005056 phosphorylation site [posttranslational modification] 645462005057 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 645462005058 ATP binding site [chemical binding]; other site 645462005059 Mg2+ binding site [ion binding]; other site 645462005060 G-X-G motif; other site 645462005061 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 645462005062 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 645462005063 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 645462005064 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 645462005065 Acyltransferase family; Region: Acyl_transf_3; pfam01757 645462005066 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 645462005067 alanine racemase; Reviewed; Region: alr; PRK00053 645462005068 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, VanT and similar proteins; Region: PLPDE_III_VanT; cd06825 645462005069 active site 645462005070 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 645462005071 dimer interface [polypeptide binding]; other site 645462005072 substrate binding site [chemical binding]; other site 645462005073 catalytic residues [active] 645462005074 Uncharacterized conserved protein [Function unknown]; Region: COG0398 645462005075 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 645462005076 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 645462005077 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 645462005078 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 645462005079 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 645462005080 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 645462005081 active site 645462005082 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 645462005083 Ligand Binding Site [chemical binding]; other site 645462005084 Molecular Tunnel; other site 645462005085 Domain of unknown function (DUF4356); Region: DUF4356; pfam14266 645462005086 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 645462005087 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 645462005088 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 645462005089 putative metal binding site [ion binding]; other site 645462005090 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 645462005091 putative metal binding site [ion binding]; other site 645462005092 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 645462005093 putative metal binding site [ion binding]; other site 645462005094 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 645462005095 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 645462005096 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 645462005097 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 645462005098 Soluble P-type ATPase [General function prediction only]; Region: COG4087 645462005099 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 645462005100 Domain of unknown function (DUF4356); Region: DUF4356; pfam14266 645462005101 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 645462005102 C-C_Bond_Lyase of the TIM-Barrel fold; Region: C-C_Bond_Lyase; pfam15617 645462005103 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 645462005104 active site 645462005105 TRSP domain C terminus to PRTase_2; Region: TRSP; pfam12500 645462005106 Phosphoribosyl transferase (PRTase); Region: PRTase_1; pfam11202 645462005107 PELOTA RNA binding domain; Region: PELOTA_1; pfam15608 645462005108 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 645462005109 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 645462005110 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 645462005111 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 645462005112 non-specific DNA binding site [nucleotide binding]; other site 645462005113 salt bridge; other site 645462005114 sequence-specific DNA binding site [nucleotide binding]; other site 645462005115 Cupin domain; Region: Cupin_2; pfam07883 645462005116 Predicted integral membrane protein [Function unknown]; Region: COG5505 645462005117 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 645462005118 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 645462005119 active site 645462005120 dimer interface [polypeptide binding]; other site 645462005121 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 645462005122 ABC-ATPase subunit interface; other site 645462005123 dimer interface [polypeptide binding]; other site 645462005124 putative PBP binding regions; other site 645462005125 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 645462005126 ABC-ATPase subunit interface; other site 645462005127 dimer interface [polypeptide binding]; other site 645462005128 putative PBP binding regions; other site 645462005129 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 645462005130 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 645462005131 Walker A/P-loop; other site 645462005132 ATP binding site [chemical binding]; other site 645462005133 Q-loop/lid; other site 645462005134 ABC transporter signature motif; other site 645462005135 Walker B; other site 645462005136 D-loop; other site 645462005137 H-loop/switch region; other site 645462005138 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 645462005139 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 645462005140 putative ligand binding residues [chemical binding]; other site 645462005141 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 645462005142 nucleotidyl binding site; other site 645462005143 metal binding site [ion binding]; metal-binding site 645462005144 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 645462005145 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 645462005146 putative metal binding site [ion binding]; other site 645462005147 NLPA lipoprotein; Region: Lipoprotein_9; cl19159 645462005148 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 645462005149 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 645462005150 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 645462005151 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 645462005152 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 645462005153 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 645462005154 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 645462005155 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 645462005156 tetramer interface [polypeptide binding]; other site 645462005157 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462005158 catalytic residue [active] 645462005159 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 645462005160 tetramer interface [polypeptide binding]; other site 645462005161 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462005162 catalytic residue [active] 645462005163 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 645462005164 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 645462005165 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 645462005166 motif II; other site 645462005167 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 645462005168 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 645462005169 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 645462005170 Protein of unknown function; Region: DUF3658; pfam12395 645462005171 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 645462005172 guanine deaminase; Region: guan_deamin; TIGR02967 645462005173 active site 645462005174 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 645462005175 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 645462005176 non-specific DNA binding site [nucleotide binding]; other site 645462005177 salt bridge; other site 645462005178 sequence-specific DNA binding site [nucleotide binding]; other site 645462005179 Cupin domain; Region: Cupin_2; cl17218 645462005180 cysteine synthase; Region: PLN02565 645462005181 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 645462005182 dimer interface [polypeptide binding]; other site 645462005183 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462005184 catalytic residue [active] 645462005185 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; pfam10110 645462005186 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 645462005187 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 645462005188 putative active site [active] 645462005189 catalytic site [active] 645462005190 putative metal binding site [ion binding]; other site 645462005191 maltose O-acetyltransferase; Provisional; Region: PRK10092 645462005192 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 645462005193 active site 645462005194 substrate binding site [chemical binding]; other site 645462005195 trimer interface [polypeptide binding]; other site 645462005196 CoA binding site [chemical binding]; other site 645462005197 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 645462005198 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 645462005199 Walker A/P-loop; other site 645462005200 ATP binding site [chemical binding]; other site 645462005201 Q-loop/lid; other site 645462005202 ABC transporter signature motif; other site 645462005203 Walker B; other site 645462005204 D-loop; other site 645462005205 H-loop/switch region; other site 645462005206 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 645462005207 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462005208 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 645462005209 active site 645462005210 phosphorylation site [posttranslational modification] 645462005211 intermolecular recognition site; other site 645462005212 dimerization interface [polypeptide binding]; other site 645462005213 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 645462005214 DNA binding site [nucleotide binding] 645462005215 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462005216 HAMP domain; Region: HAMP; pfam00672 645462005217 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 645462005218 dimer interface [polypeptide binding]; other site 645462005219 phosphorylation site [posttranslational modification] 645462005220 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 645462005221 ATP binding site [chemical binding]; other site 645462005222 Mg2+ binding site [ion binding]; other site 645462005223 G-X-G motif; other site 645462005224 TraX protein; Region: TraX; cl05434 645462005225 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 645462005226 Predicted transcriptional regulators [Transcription]; Region: COG1733 645462005227 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 645462005228 putative substrate binding pocket [chemical binding]; other site 645462005229 AC domain interface; other site 645462005230 catalytic triad [active] 645462005231 AB domain interface; other site 645462005232 interchain disulfide; other site 645462005233 Predicted membrane protein [Function unknown]; Region: COG3817 645462005234 Protein of unknown function (DUF979); Region: DUF979; pfam06166 645462005235 Protein of unknown function (DUF969); Region: DUF969; pfam06149 645462005236 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 645462005237 FMN-binding domain; Region: FMN_bind; cl01081 645462005238 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 645462005239 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 645462005240 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 645462005241 active site 645462005242 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 645462005243 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 645462005244 A new structural DNA glycosylase; Region: AlkD_like; cd06561 645462005245 active site 645462005246 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 645462005247 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462005248 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 645462005249 active site 645462005250 phosphorylation site [posttranslational modification] 645462005251 intermolecular recognition site; other site 645462005252 dimerization interface [polypeptide binding]; other site 645462005253 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 645462005254 DNA binding site [nucleotide binding] 645462005255 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462005256 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 645462005257 dimer interface [polypeptide binding]; other site 645462005258 phosphorylation site [posttranslational modification] 645462005259 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 645462005260 ATP binding site [chemical binding]; other site 645462005261 Mg2+ binding site [ion binding]; other site 645462005262 G-X-G motif; other site 645462005263 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 645462005264 catalytic residues [active] 645462005265 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 645462005266 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 645462005267 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 645462005268 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 645462005269 dimerization interface [polypeptide binding]; other site 645462005270 putative DNA binding site [nucleotide binding]; other site 645462005271 putative Zn2+ binding site [ion binding]; other site 645462005272 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 645462005273 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 645462005274 Citrate transporter; Region: CitMHS; pfam03600 645462005275 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 645462005276 transmembrane helices; other site 645462005277 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 645462005278 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 645462005279 homopentamer interface [polypeptide binding]; other site 645462005280 active site 645462005281 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 645462005282 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 645462005283 dimerization interface [polypeptide binding]; other site 645462005284 active site 645462005285 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 645462005286 Lumazine binding domain; Region: Lum_binding; pfam00677 645462005287 Lumazine binding domain; Region: Lum_binding; pfam00677 645462005288 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 645462005289 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 645462005290 catalytic motif [active] 645462005291 Zn binding site [ion binding]; other site 645462005292 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 645462005293 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 645462005294 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 645462005295 ATP binding site [chemical binding]; other site 645462005296 putative Mg++ binding site [ion binding]; other site 645462005297 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 645462005298 nucleotide binding region [chemical binding]; other site 645462005299 ATP-binding site [chemical binding]; other site 645462005300 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 645462005301 HRDC domain; Region: HRDC; pfam00570 645462005302 HRDC domain; Region: HRDC; pfam00570 645462005303 Helix-turn-helix domain; Region: HTH_40; pfam14493 645462005304 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 645462005305 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 645462005306 thiS-thiF/thiG interaction site; other site 645462005307 ThiS-like ubiquitin; Region: ThiS-like; pfam14453 645462005308 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 645462005309 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 645462005310 ATP binding site [chemical binding]; other site 645462005311 substrate interface [chemical binding]; other site 645462005312 thiazole synthase; Reviewed; Region: thiG; PRK00208 645462005313 phosphate binding site [ion binding]; other site 645462005314 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 645462005315 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 645462005316 FeS/SAM binding site; other site 645462005317 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 645462005318 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 645462005319 thiamine phosphate binding site [chemical binding]; other site 645462005320 active site 645462005321 pyrophosphate binding site [ion binding]; other site 645462005322 Predicted membrane protein [Function unknown]; Region: COG1288 645462005323 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 645462005324 synthetase active site [active] 645462005325 NTP binding site [chemical binding]; other site 645462005326 metal binding site [ion binding]; metal-binding site 645462005327 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 645462005328 GTP binding site; other site 645462005329 CoA binding domain; Region: CoA_binding_2; pfam13380 645462005330 hypothetical protein; Provisional; Region: PRK00967 645462005331 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 645462005332 MPT binding site; other site 645462005333 trimer interface [polypeptide binding]; other site 645462005334 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 645462005335 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 645462005336 FeS/SAM binding site; other site 645462005337 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 645462005338 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 645462005339 trimer interface [polypeptide binding]; other site 645462005340 dimer interface [polypeptide binding]; other site 645462005341 putative active site [active] 645462005342 MOSC domain; Region: MOSC; pfam03473 645462005343 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 645462005344 Na binding site [ion binding]; other site 645462005345 Protein of unknown function (DUF917); Region: DUF917; pfam06032 645462005346 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 645462005347 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 645462005348 putative acyl-acceptor binding pocket; other site 645462005349 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 645462005350 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 645462005351 Helix-turn-helix domain; Region: HTH_18; pfam12833 645462005352 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 645462005353 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 645462005354 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 645462005355 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 645462005356 PhoU domain; Region: PhoU; pfam01895 645462005357 PhoU domain; Region: PhoU; pfam01895 645462005358 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 645462005359 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 645462005360 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 645462005361 Coenzyme A binding pocket [chemical binding]; other site 645462005362 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 645462005363 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 645462005364 B12 binding site [chemical binding]; other site 645462005365 Uroporphyrinogen decarboxylase (URO-D); Region: URO-D; pfam01208 645462005366 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 645462005367 HAD-hyrolase-like; Region: Hydrolase_like; cl19142 645462005368 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 645462005369 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 645462005370 motif II; other site 645462005371 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 645462005372 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 645462005373 non-specific DNA binding site [nucleotide binding]; other site 645462005374 salt bridge; other site 645462005375 sequence-specific DNA binding site [nucleotide binding]; other site 645462005376 Cupin domain; Region: Cupin_2; pfam07883 645462005377 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 645462005378 fructuronate transporter; Provisional; Region: PRK10034; cl15264 645462005379 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 645462005380 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 645462005381 substrate binding pocket [chemical binding]; other site 645462005382 membrane-bound complex binding site; other site 645462005383 hinge residues; other site 645462005384 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 645462005385 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 645462005386 dimer interface [polypeptide binding]; other site 645462005387 phosphorylation site [posttranslational modification] 645462005388 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 645462005389 ATP binding site [chemical binding]; other site 645462005390 Mg2+ binding site [ion binding]; other site 645462005391 G-X-G motif; other site 645462005392 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 645462005393 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 645462005394 active site 645462005395 phosphorylation site [posttranslational modification] 645462005396 intermolecular recognition site; other site 645462005397 dimerization interface [polypeptide binding]; other site 645462005398 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 645462005399 Walker A motif; other site 645462005400 ATP binding site [chemical binding]; other site 645462005401 Walker B motif; other site 645462005402 arginine finger; other site 645462005403 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 645462005404 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 645462005405 Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); Region: GRDB; cl19416 645462005406 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 645462005407 Sodium/glutamate symporter; Region: Glt_symporter; cl19414 645462005408 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 645462005409 active site 645462005410 purine riboside binding site [chemical binding]; other site 645462005411 EcsC protein family; Region: EcsC; pfam12787 645462005412 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 645462005413 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 645462005414 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 645462005415 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 645462005416 active site 645462005417 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462005418 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462005419 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462005420 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 645462005421 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 645462005422 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 645462005423 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 645462005424 Walker A/P-loop; other site 645462005425 ATP binding site [chemical binding]; other site 645462005426 Q-loop/lid; other site 645462005427 ABC transporter signature motif; other site 645462005428 Walker B; other site 645462005429 D-loop; other site 645462005430 H-loop/switch region; other site 645462005431 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 645462005432 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 645462005433 non-specific DNA binding site [nucleotide binding]; other site 645462005434 salt bridge; other site 645462005435 sequence-specific DNA binding site [nucleotide binding]; other site 645462005436 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 645462005437 active site 645462005438 catalytic residues [active] 645462005439 metal binding site [ion binding]; metal-binding site 645462005440 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 645462005441 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 645462005442 Radical SAM superfamily; Region: Radical_SAM; pfam04055 645462005443 FeS/SAM binding site; other site 645462005444 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 645462005445 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 645462005446 S-adenosylmethionine binding site [chemical binding]; other site 645462005447 Flavodoxins [Energy production and conversion]; Region: FldA; COG0716 645462005448 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 645462005449 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 645462005450 Protein of unknown function (DUF2992); Region: DUF2992; pfam11208 645462005451 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 645462005452 B3/4 domain; Region: B3_4; cl19243 645462005453 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 645462005454 dimer interface [polypeptide binding]; other site 645462005455 ADP-ribose binding site [chemical binding]; other site 645462005456 active site 645462005457 nudix motif; other site 645462005458 metal binding site [ion binding]; metal-binding site 645462005459 Domain of unknown function (DUF4624); Region: DUF4624; pfam15417 645462005460 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 645462005461 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 645462005462 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 645462005463 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 645462005464 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 645462005465 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 645462005466 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 645462005467 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 645462005468 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 645462005469 DNA binding site [nucleotide binding] 645462005470 active site 645462005471 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 645462005472 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 645462005473 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 645462005474 substrate binding pocket [chemical binding]; other site 645462005475 membrane-bound complex binding site; other site 645462005476 hinge residues; other site 645462005477 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 645462005478 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 645462005479 dimer interface [polypeptide binding]; other site 645462005480 conserved gate region; other site 645462005481 putative PBP binding loops; other site 645462005482 ABC-ATPase subunit interface; other site 645462005483 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 645462005484 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462005485 Walker A/P-loop; other site 645462005486 ATP binding site [chemical binding]; other site 645462005487 Q-loop/lid; other site 645462005488 ABC transporter signature motif; other site 645462005489 Walker B; other site 645462005490 D-loop; other site 645462005491 H-loop/switch region; other site 645462005492 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 645462005493 putative ArsC-like catalytic residues; other site 645462005494 putative TRX-like catalytic residues [active] 645462005495 Domain of unknown function (DUF4253); Region: DUF4253; pfam14062 645462005496 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 645462005497 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 645462005498 Ligand Binding Site [chemical binding]; other site 645462005499 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 645462005500 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 645462005501 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 645462005502 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462005503 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 645462005504 active site 645462005505 phosphorylation site [posttranslational modification] 645462005506 intermolecular recognition site; other site 645462005507 dimerization interface [polypeptide binding]; other site 645462005508 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 645462005509 DNA binding site [nucleotide binding] 645462005510 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462005511 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 645462005512 dimerization interface [polypeptide binding]; other site 645462005513 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 645462005514 dimer interface [polypeptide binding]; other site 645462005515 phosphorylation site [posttranslational modification] 645462005516 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 645462005517 ATP binding site [chemical binding]; other site 645462005518 Mg2+ binding site [ion binding]; other site 645462005519 G-X-G motif; other site 645462005520 tRNA pseudouridine synthase A; Reviewed; Region: PRK12434 645462005521 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 645462005522 dimerization interface 3.5A [polypeptide binding]; other site 645462005523 active site 645462005524 argininosuccinate synthase; Provisional; Region: PRK13820 645462005525 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 645462005526 ANP binding site [chemical binding]; other site 645462005527 Substrate Binding Site II [chemical binding]; other site 645462005528 Substrate Binding Site I [chemical binding]; other site 645462005529 NlpC/p60-like transpeptidase; Region: Transpep_BrtH; pfam14399 645462005530 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 645462005531 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 645462005532 DNA binding residues [nucleotide binding] 645462005533 dimer interface [polypeptide binding]; other site 645462005534 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 645462005535 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 645462005536 Predicted membrane protein [Function unknown]; Region: COG2323 645462005537 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 645462005538 active site 645462005539 catalytic site [active] 645462005540 substrate binding site [chemical binding]; other site 645462005541 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 645462005542 L-threonine dehydrogenase, extended (e) SDRs; Region: TDH_SDR_e; cd05272 645462005543 NAD binding site [chemical binding]; other site 645462005544 homodimer interface [polypeptide binding]; other site 645462005545 active site 645462005546 putative substrate binding site [chemical binding]; other site 645462005547 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 645462005548 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 645462005549 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 645462005550 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 645462005551 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 645462005552 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 645462005553 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 645462005554 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 645462005555 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 645462005556 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 645462005557 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 645462005558 active site residue [active] 645462005559 Transcriptional regulator [Transcription]; Region: LysR; COG0583 645462005560 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 645462005561 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 645462005562 putative dimerization interface [polypeptide binding]; other site 645462005563 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 645462005564 putative metal binding site [ion binding]; other site 645462005565 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 645462005566 putative metal binding site [ion binding]; other site 645462005567 Uncharacterized conserved protein [Function unknown]; Region: COG1284 645462005568 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 645462005569 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 645462005570 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 645462005571 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 645462005572 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462005573 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462005574 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462005575 Transcriptional regulators [Transcription]; Region: PurR; COG1609 645462005576 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 645462005577 DNA binding site [nucleotide binding] 645462005578 domain linker motif; other site 645462005579 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 645462005580 dimerization interface [polypeptide binding]; other site 645462005581 ligand binding site [chemical binding]; other site 645462005582 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 645462005583 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 645462005584 substrate binding [chemical binding]; other site 645462005585 active site 645462005586 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 645462005587 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 645462005588 putative substrate binding site [chemical binding]; other site 645462005589 putative ATP binding site [chemical binding]; other site 645462005590 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 645462005591 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 645462005592 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 645462005593 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 645462005594 catalytic residue [active] 645462005595 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 645462005596 putative substrate translocation pore; other site 645462005597 Penicillinase repressor; Region: Pencillinase_R; pfam03965 645462005598 LytTr DNA-binding domain; Region: LytTR; smart00850 645462005599 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 645462005600 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 645462005601 catalytic core [active] 645462005602 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 645462005603 flavoprotein, HI0933 family; Region: TIGR00275 645462005604 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 645462005605 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 645462005606 cytidylate kinase; Provisional; Region: cmk; PRK00023 645462005607 AAA domain; Region: AAA_17; cl19128 645462005608 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 645462005609 CMP-binding site; other site 645462005610 The sites determining sugar specificity; other site 645462005611 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 645462005612 putative acyl-acceptor binding pocket; other site 645462005613 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Region: lytB_ispH; cd13944 645462005614 Fe-S cluster binding site [ion binding]; other site 645462005615 substrate binding site [chemical binding]; other site 645462005616 catalytic site [active] 645462005617 Protein of unknown function (DUF2899); Region: DUF2899; pfam11449 645462005618 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 645462005619 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 645462005620 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 645462005621 active site 645462005622 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 645462005623 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 645462005624 catalytic triad [active] 645462005625 Protein of unknown function (DUF328); Region: DUF328; pfam03883 645462005626 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 645462005627 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 645462005628 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 645462005629 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 645462005630 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 645462005631 motif II; other site 645462005632 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 645462005633 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 645462005634 homodimer interface [polypeptide binding]; other site 645462005635 substrate-cofactor binding pocket; other site 645462005636 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462005637 catalytic residue [active] 645462005638 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 645462005639 proposed active site lysine [active] 645462005640 conserved cys residue [active] 645462005641 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 645462005642 Transcriptional regulators [Transcription]; Region: MarR; COG1846 645462005643 putative DNA binding site [nucleotide binding]; other site 645462005644 putative Zn2+ binding site [ion binding]; other site 645462005645 FtsH Extracellular; Region: FtsH_ext; pfam06480 645462005646 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 645462005647 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 645462005648 Walker A motif; other site 645462005649 ATP binding site [chemical binding]; other site 645462005650 Walker B motif; other site 645462005651 arginine finger; other site 645462005652 Peptidase family M41; Region: Peptidase_M41; pfam01434 645462005653 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 645462005654 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 645462005655 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 645462005656 Ligand Binding Site [chemical binding]; other site 645462005657 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 645462005658 GAF domain; Region: GAF_3; pfam13492 645462005659 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 645462005660 dimer interface [polypeptide binding]; other site 645462005661 phosphorylation site [posttranslational modification] 645462005662 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 645462005663 ATP binding site [chemical binding]; other site 645462005664 Mg2+ binding site [ion binding]; other site 645462005665 G-X-G motif; other site 645462005666 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462005667 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 645462005668 active site 645462005669 phosphorylation site [posttranslational modification] 645462005670 intermolecular recognition site; other site 645462005671 dimerization interface [polypeptide binding]; other site 645462005672 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 645462005673 DNA binding site [nucleotide binding] 645462005674 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 645462005675 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 645462005676 oligomer interface [polypeptide binding]; other site 645462005677 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 645462005678 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 645462005679 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 645462005680 active site 645462005681 dimer interface [polypeptide binding]; other site 645462005682 metal binding site [ion binding]; metal-binding site 645462005683 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 645462005684 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 645462005685 hinge; other site 645462005686 active site 645462005687 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 645462005688 Tetramer interface [polypeptide binding]; other site 645462005689 active site 645462005690 FMN-binding site [chemical binding]; other site 645462005691 Chorismate mutase type II; Region: CM_2; smart00830 645462005692 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 645462005693 Prephenate dehydratase; Region: PDT; pfam00800 645462005694 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 645462005695 putative L-Phe binding site [chemical binding]; other site 645462005696 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 645462005697 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 645462005698 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 645462005699 shikimate binding site; other site 645462005700 NAD(P) binding site [chemical binding]; other site 645462005701 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 645462005702 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 645462005703 ADP binding site [chemical binding]; other site 645462005704 magnesium binding site [ion binding]; other site 645462005705 putative shikimate binding site; other site 645462005706 prephenate dehydrogenase; Validated; Region: PRK08507 645462005707 Prephenate dehydrogenase; Region: PDH; pfam02153 645462005708 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 645462005709 metal binding site [ion binding]; metal-binding site 645462005710 nucleotidyl binding site; other site 645462005711 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 645462005712 Sensory domain of two-component sensor kinase; Region: Cache_3; pfam14827 645462005713 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 645462005714 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 645462005715 putative active site [active] 645462005716 heme pocket [chemical binding]; other site 645462005717 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 645462005718 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 645462005719 putative active site [active] 645462005720 heme pocket [chemical binding]; other site 645462005721 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 645462005722 putative active site [active] 645462005723 heme pocket [chemical binding]; other site 645462005724 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 645462005725 metal binding site [ion binding]; metal-binding site 645462005726 active site 645462005727 I-site; other site 645462005728 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 645462005729 putative active site [active] 645462005730 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 645462005731 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 645462005732 conserved repeat domain; Region: B_ant_repeat; TIGR01451 645462005733 S-layer domain [Cell envelope biogenesis, outer membrane]; Region: COG1361 645462005734 Domain of unknown function DUF11; Region: DUF11; pfam01345 645462005735 Domain of unknown function DUF11; Region: DUF11; pfam01345 645462005736 Domain of unknown function DUF11; Region: DUF11; pfam01345 645462005737 Domain of unknown function DUF11; Region: DUF11; pfam01345 645462005738 Domain of unknown function DUF11; Region: DUF11; pfam01345 645462005739 Domain of unknown function DUF11; Region: DUF11; pfam01345 645462005740 Domain of unknown function DUF11; Region: DUF11; pfam01345 645462005741 Cupin domain; Region: Cupin_2; pfam07883 645462005742 NMT1-like family; Region: NMT1_2; cl17432 645462005743 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 645462005744 Methyltransferase domain; Region: Methyltransf_31; pfam13847 645462005745 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 645462005746 S-adenosylmethionine binding site [chemical binding]; other site 645462005747 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 645462005748 putative deacylase active site [active] 645462005749 YtxH-like protein; Region: YtxH; pfam12732 645462005750 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 645462005751 active site 645462005752 metal binding site [ion binding]; metal-binding site 645462005753 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 645462005754 catalytic motif [active] 645462005755 Zn binding site [ion binding]; other site 645462005756 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 645462005757 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 645462005758 non-specific DNA binding site [nucleotide binding]; other site 645462005759 salt bridge; other site 645462005760 sequence-specific DNA binding site [nucleotide binding]; other site 645462005761 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 645462005762 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 645462005763 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 645462005764 dimer interface [polypeptide binding]; other site 645462005765 conserved gate region; other site 645462005766 putative PBP binding loops; other site 645462005767 ABC-ATPase subunit interface; other site 645462005768 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 645462005769 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 645462005770 catalytic residues [active] 645462005771 catalytic nucleophile [active] 645462005772 Recombinase; Region: Recombinase; pfam07508 645462005773 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 645462005774 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 645462005775 putative active site [active] 645462005776 metal binding site [ion binding]; metal-binding site 645462005777 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 645462005778 putative hexamer interface [polypeptide binding]; other site 645462005779 putative hexagonal pore; other site 645462005780 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 645462005781 G1 box; other site 645462005782 GTP/Mg2+ binding site [chemical binding]; other site 645462005783 G2 box; other site 645462005784 Switch I region; other site 645462005785 G3 box; other site 645462005786 Switch II region; other site 645462005787 G4 box; other site 645462005788 G5 box; other site 645462005789 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 645462005790 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 645462005791 active site 645462005792 phosphorylation site [posttranslational modification] 645462005793 intermolecular recognition site; other site 645462005794 dimerization interface [polypeptide binding]; other site 645462005795 ANTAR domain; Region: ANTAR; pfam03861 645462005796 Signal transduction histidine kinase; Region: H_kinase_N; pfam12282 645462005797 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 645462005798 Histidine kinase; Region: HisKA_2; pfam07568 645462005799 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 645462005800 ATP binding site [chemical binding]; other site 645462005801 Mg2+ binding site [ion binding]; other site 645462005802 G-X-G motif; other site 645462005803 Ethanolamine utilisation protein EutA; Region: EutA; pfam06277 645462005804 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 645462005805 Ethanolamine ammonia-lyase, small subunit [Amino acid transport and metabolism]; Region: EutC; COG4302 645462005806 ethanolamine utilization protein EutL; Provisional; Region: PRK15405 645462005807 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_EutL_repeat1; cd07049 645462005808 putative hexamer interface [polypeptide binding]; other site 645462005809 putative hexagonal pore; other site 645462005810 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_EutL_repeat2; cd07050 645462005811 putative hexamer interface [polypeptide binding]; other site 645462005812 putative hexagonal pore; other site 645462005813 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 645462005814 Hexamer interface [polypeptide binding]; other site 645462005815 Hexagonal pore residue; other site 645462005816 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 645462005817 putative catalytic cysteine [active] 645462005818 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 645462005819 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 645462005820 Hexamer interface [polypeptide binding]; other site 645462005821 Putative hexagonal pore residue; other site 645462005822 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 645462005823 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 645462005824 Propanediol utilisation protein PduL; Region: PduL; pfam06130 645462005825 Propanediol utilisation protein PduL; Region: PduL; pfam06130 645462005826 ethanolamine utilization protein; Region: eut_hyp; TIGR02536 645462005827 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 645462005828 Hexamer/Pentamer interface [polypeptide binding]; other site 645462005829 central pore; other site 645462005830 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 645462005831 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 645462005832 putative hexamer interface [polypeptide binding]; other site 645462005833 putative hexagonal pore; other site 645462005834 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 645462005835 putative hexamer interface [polypeptide binding]; other site 645462005836 putative hexagonal pore; other site 645462005837 ethanolamine utilization protein EutH; Provisional; Region: PRK15086 645462005838 Ethanolamine utilisation protein EutQ; Region: EutQ; pfam06249 645462005839 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 645462005840 MarR family; Region: MarR_2; cl17246 645462005841 Transcriptional regulators [Transcription]; Region: MarR; COG1846 645462005842 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 645462005843 putative DNA binding site [nucleotide binding]; other site 645462005844 putative Zn2+ binding site [ion binding]; other site 645462005845 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 645462005846 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_subfamily5; cd08019 645462005847 metal binding site [ion binding]; metal-binding site 645462005848 putative dimer interface [polypeptide binding]; other site 645462005849 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 645462005850 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 645462005851 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 645462005852 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462005853 homodimer interface [polypeptide binding]; other site 645462005854 catalytic residue [active] 645462005855 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 645462005856 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 645462005857 ligand binding site [chemical binding]; other site 645462005858 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 645462005859 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 645462005860 LexA repressor; Validated; Region: PRK00215 645462005861 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 645462005862 putative DNA binding site [nucleotide binding]; other site 645462005863 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 645462005864 Catalytic site [active] 645462005865 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 645462005866 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 645462005867 active site 645462005868 DNA binding site [nucleotide binding] 645462005869 Int/Topo IB signature motif; other site 645462005870 Uncharacterized conserved protein [Function unknown]; Region: COG3603 645462005871 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase); Region: ACT_AK-like; cd04868 645462005872 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 645462005873 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 645462005874 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl19172 645462005875 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 645462005876 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 645462005877 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 645462005878 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 645462005879 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 645462005880 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 645462005881 carboxyltransferase (CT) interaction site; other site 645462005882 biotinylation site [posttranslational modification]; other site 645462005883 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 645462005884 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 645462005885 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 645462005886 active site 645462005887 metal binding site [ion binding]; metal-binding site 645462005888 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 645462005889 Helix-turn-helix domain; Region: HTH_18; pfam12833 645462005890 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 645462005891 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 645462005892 Walker A/P-loop; other site 645462005893 ATP binding site [chemical binding]; other site 645462005894 Q-loop/lid; other site 645462005895 ABC transporter signature motif; other site 645462005896 Walker B; other site 645462005897 D-loop; other site 645462005898 H-loop/switch region; other site 645462005899 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 645462005900 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 645462005901 FtsX-like permease family; Region: FtsX; pfam02687 645462005902 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 645462005903 FtsX-like permease family; Region: FtsX; pfam02687 645462005904 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462005905 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 645462005906 dimer interface [polypeptide binding]; other site 645462005907 phosphorylation site [posttranslational modification] 645462005908 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 645462005909 ATP binding site [chemical binding]; other site 645462005910 Mg2+ binding site [ion binding]; other site 645462005911 G-X-G motif; other site 645462005912 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 645462005913 Uncharacterized conserved protein [Function unknown]; Region: COG1284 645462005914 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 645462005915 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 645462005916 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 645462005917 Coenzyme A binding pocket [chemical binding]; other site 645462005918 Transcriptional regulator [Transcription]; Region: LysR; COG0583 645462005919 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 645462005920 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 645462005921 dimerization interface [polypeptide binding]; other site 645462005922 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 645462005923 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 645462005924 FtsX-like permease family; Region: FtsX; pfam02687 645462005925 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 645462005926 FtsX-like permease family; Region: FtsX; pfam02687 645462005927 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 645462005928 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 645462005929 Walker A/P-loop; other site 645462005930 ATP binding site [chemical binding]; other site 645462005931 Q-loop/lid; other site 645462005932 ABC transporter signature motif; other site 645462005933 Walker B; other site 645462005934 D-loop; other site 645462005935 H-loop/switch region; other site 645462005936 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462005937 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 645462005938 dimer interface [polypeptide binding]; other site 645462005939 phosphorylation site [posttranslational modification] 645462005940 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 645462005941 ATP binding site [chemical binding]; other site 645462005942 Mg2+ binding site [ion binding]; other site 645462005943 G-X-G motif; other site 645462005944 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462005945 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 645462005946 active site 645462005947 phosphorylation site [posttranslational modification] 645462005948 intermolecular recognition site; other site 645462005949 dimerization interface [polypeptide binding]; other site 645462005950 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 645462005951 DNA binding site [nucleotide binding] 645462005952 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 645462005953 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 645462005954 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 645462005955 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462005956 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 645462005957 active site 645462005958 phosphorylation site [posttranslational modification] 645462005959 intermolecular recognition site; other site 645462005960 dimerization interface [polypeptide binding]; other site 645462005961 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 645462005962 DNA binding site [nucleotide binding] 645462005963 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462005964 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 645462005965 dimer interface [polypeptide binding]; other site 645462005966 phosphorylation site [posttranslational modification] 645462005967 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 645462005968 ATP binding site [chemical binding]; other site 645462005969 Mg2+ binding site [ion binding]; other site 645462005970 G-X-G motif; other site 645462005971 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 645462005972 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 645462005973 Walker A/P-loop; other site 645462005974 ATP binding site [chemical binding]; other site 645462005975 Q-loop/lid; other site 645462005976 ABC transporter signature motif; other site 645462005977 Walker B; other site 645462005978 D-loop; other site 645462005979 H-loop/switch region; other site 645462005980 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 645462005981 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 645462005982 FtsX-like permease family; Region: FtsX; pfam02687 645462005983 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 645462005984 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 645462005985 FtsX-like permease family; Region: FtsX; pfam02687 645462005986 Methyltransferase domain; Region: Methyltransf_31; pfam13847 645462005987 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 645462005988 S-adenosylmethionine binding site [chemical binding]; other site 645462005989 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 645462005990 WHG domain; Region: WHG; pfam13305 645462005991 Sulfate transporter family; Region: Sulfate_transp; cl19250 645462005992 Acyl-CoA thioester hydrolase/BAAT N-terminal region; Region: Bile_Hydr_Trans; pfam04775 645462005993 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 645462005994 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 645462005995 Protein of unknown function (DUF554); Region: DUF554; pfam04474 645462005996 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 645462005997 putative deacylase active site [active] 645462005998 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 645462005999 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 645462006000 hypothetical protein; Provisional; Region: PRK07205 645462006001 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 645462006002 active site 645462006003 metal binding site [ion binding]; metal-binding site 645462006004 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 645462006005 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 645462006006 catalytic residue [active] 645462006007 bacterial Hfq-like; Region: Hfq; cd01716 645462006008 hexamer interface [polypeptide binding]; other site 645462006009 Sm1 motif; other site 645462006010 RNA binding site [nucleotide binding]; other site 645462006011 Sm2 motif; other site 645462006012 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 645462006013 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 645462006014 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 645462006015 ATP binding site [chemical binding]; other site 645462006016 Mg2+ binding site [ion binding]; other site 645462006017 G-X-G motif; other site 645462006018 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 645462006019 ATP binding site [chemical binding]; other site 645462006020 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 645462006021 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 645462006022 MutS domain I; Region: MutS_I; pfam01624 645462006023 MutS domain II; Region: MutS_II; pfam05188 645462006024 MutS domain III; Region: MutS_III; pfam05192 645462006025 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 645462006026 Walker A/P-loop; other site 645462006027 ATP binding site [chemical binding]; other site 645462006028 Q-loop/lid; other site 645462006029 ABC transporter signature motif; other site 645462006030 Walker B; other site 645462006031 D-loop; other site 645462006032 H-loop/switch region; other site 645462006033 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 645462006034 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 645462006035 Walker A/P-loop; other site 645462006036 ATP binding site [chemical binding]; other site 645462006037 Q-loop/lid; other site 645462006038 ABC transporter signature motif; other site 645462006039 Walker B; other site 645462006040 D-loop; other site 645462006041 H-loop/switch region; other site 645462006042 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 645462006043 NMT1/THI5 like; Region: NMT1; pfam09084 645462006044 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 645462006045 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 645462006046 dimer interface [polypeptide binding]; other site 645462006047 conserved gate region; other site 645462006048 putative PBP binding loops; other site 645462006049 ABC-ATPase subunit interface; other site 645462006050 Domain of unknown function DUF77; Region: DUF77; pfam01910 645462006051 Predicted transcriptional regulators [Transcription]; Region: COG1733 645462006052 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 645462006053 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 645462006054 Probable transposase; Region: OrfB_IS605; pfam01385 645462006055 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 645462006056 Diaminopimelate epimerase; Region: DAP_epimerase; cl19724 645462006057 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 645462006058 putative active site [active] 645462006059 putative CoA binding site [chemical binding]; other site 645462006060 nudix motif; other site 645462006061 metal binding site [ion binding]; metal-binding site 645462006062 Domain of unknown function (DUF3784); Region: DUF3784; pfam12650 645462006063 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 645462006064 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 645462006065 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 645462006066 FeS/SAM binding site; other site 645462006067 TRAM domain; Region: TRAM; pfam01938 645462006068 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462006069 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462006070 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462006071 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 645462006072 Bacterial SH3 domain; Region: SH3_3; pfam08239 645462006073 Bacterial SH3 domain; Region: SH3_3; pfam08239 645462006074 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 645462006075 DNA-binding site [nucleotide binding]; DNA binding site 645462006076 RNA-binding motif; other site 645462006077 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 645462006078 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 645462006079 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 645462006080 Predicted integral membrane protein [Function unknown]; Region: COG5658 645462006081 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 645462006082 SdpI/YhfL protein family; Region: SdpI; pfam13630 645462006083 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 645462006084 dimerization interface [polypeptide binding]; other site 645462006085 putative DNA binding site [nucleotide binding]; other site 645462006086 putative Zn2+ binding site [ion binding]; other site 645462006087 hypothetical protein; Provisional; Region: PRK10621 645462006088 Cupin domain; Region: Cupin_2; cl17218 645462006089 Sensory domain found in PocR; Region: PocR; pfam10114 645462006090 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 645462006091 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 645462006092 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 645462006093 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 645462006094 DNA binding residues [nucleotide binding] 645462006095 putative dimer interface [polypeptide binding]; other site 645462006096 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 645462006097 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 645462006098 flavodoxin, short chain; Region: flav_short; TIGR01753 645462006099 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 645462006100 Subtilase family; Region: Peptidase_S8; pfam00082 645462006101 active site 645462006102 catalytic residues [active] 645462006103 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 645462006104 VanZ like family; Region: VanZ; pfam04892 645462006105 L-aspartate oxidase; Provisional; Region: PRK06175 645462006106 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 645462006107 non-specific DNA binding site [nucleotide binding]; other site 645462006108 salt bridge; other site 645462006109 sequence-specific DNA binding site [nucleotide binding]; other site 645462006110 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 645462006111 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 645462006112 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 645462006113 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 645462006114 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 645462006115 Major Facilitator Superfamily; Region: MFS_1; pfam07690 645462006116 putative substrate translocation pore; other site 645462006117 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 645462006118 Clp amino terminal domain; Region: Clp_N; pfam02861 645462006119 Clp amino terminal domain; Region: Clp_N; pfam02861 645462006120 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 645462006121 Walker A motif; other site 645462006122 ATP binding site [chemical binding]; other site 645462006123 Walker B motif; other site 645462006124 arginine finger; other site 645462006125 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 645462006126 Walker A motif; other site 645462006127 ATP binding site [chemical binding]; other site 645462006128 Walker B motif; other site 645462006129 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 645462006130 Firmicute plasmid replication protein (RepL); Region: RepL; pfam05732 645462006131 Predicted transcriptional regulators [Transcription]; Region: COG1725 645462006132 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 645462006133 DNA-binding site [nucleotide binding]; DNA binding site 645462006134 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 645462006135 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 645462006136 Walker A/P-loop; other site 645462006137 ATP binding site [chemical binding]; other site 645462006138 Q-loop/lid; other site 645462006139 ABC transporter signature motif; other site 645462006140 Walker B; other site 645462006141 D-loop; other site 645462006142 H-loop/switch region; other site 645462006143 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 645462006144 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 645462006145 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 645462006146 Coenzyme A binding pocket [chemical binding]; other site 645462006147 allantoate amidohydrolase; Reviewed; Region: PRK09290 645462006148 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 645462006149 active site 645462006150 metal binding site [ion binding]; metal-binding site 645462006151 dimer interface [polypeptide binding]; other site 645462006152 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 645462006153 ornithine carbamoyltransferase; Validated; Region: PRK02102 645462006154 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 645462006155 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 645462006156 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 645462006157 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 645462006158 inhibitor-cofactor binding pocket; inhibition site 645462006159 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462006160 catalytic residue [active] 645462006161 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 645462006162 feedback inhibition sensing region; other site 645462006163 homohexameric interface [polypeptide binding]; other site 645462006164 nucleotide binding site [chemical binding]; other site 645462006165 N-acetyl-L-glutamate binding site [chemical binding]; other site 645462006166 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 645462006167 heterotetramer interface [polypeptide binding]; other site 645462006168 active site pocket [active] 645462006169 cleavage site 645462006170 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 645462006171 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 645462006172 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl19935 645462006173 conjugal transfer protein TrbB; Provisional; Region: PRK13728; cl17283 645462006174 YoaP-like; Region: YoaP; pfam14268 645462006175 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 645462006176 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 645462006177 Coenzyme A binding pocket [chemical binding]; other site 645462006178 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 645462006179 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 645462006180 Bacterial regulatory proteins, tetR family; Region: TetR_N; cl19382 645462006181 WHG domain; Region: WHG; pfam13305 645462006182 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 645462006183 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 645462006184 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 645462006185 salt bridge; other site 645462006186 non-specific DNA binding site [nucleotide binding]; other site 645462006187 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 645462006188 sequence-specific DNA binding site [nucleotide binding]; other site 645462006189 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 645462006190 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 645462006191 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 645462006192 putative active site [active] 645462006193 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 645462006194 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 645462006195 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 645462006196 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 645462006197 RNA binding surface [nucleotide binding]; other site 645462006198 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 645462006199 active site 645462006200 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 645462006201 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 645462006202 diaminopimelate decarboxylase; Region: lysA; TIGR01048 645462006203 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 645462006204 active site 645462006205 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 645462006206 substrate binding site [chemical binding]; other site 645462006207 catalytic residues [active] 645462006208 dimer interface [polypeptide binding]; other site 645462006209 aspartate kinase; Reviewed; Region: PRK06635 645462006210 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 645462006211 putative nucleotide binding site [chemical binding]; other site 645462006212 putative catalytic residues [active] 645462006213 putative Mg ion binding site [ion binding]; other site 645462006214 putative aspartate binding site [chemical binding]; other site 645462006215 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII and related proteins; Region: ACT_AK-LysC-DapG-like_1; cd04891 645462006216 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 645462006217 putative allosteric regulatory residue; other site 645462006218 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 645462006219 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 645462006220 active site 645462006221 HIGH motif; other site 645462006222 KMSKS motif; other site 645462006223 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 645462006224 putative lipid kinase; Reviewed; Region: PRK13059 645462006225 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 645462006226 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 645462006227 Protein of unknown function (DUF4003); Region: DUF4003; pfam13170 645462006228 Penicillinase repressor; Region: Penicillinase_R; cl17580 645462006229 AP2-like DNA-binding integrase domain; Region: Integrase_AP2; pfam14657 645462006230 Phage integrase, N-terminal SAM-like domain; Region: Phage_int_SAM_3; pfam14659 645462006231 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 645462006232 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 645462006233 Int/Topo IB signature motif; other site 645462006234 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 645462006235 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462006236 Walker A/P-loop; other site 645462006237 ATP binding site [chemical binding]; other site 645462006238 ABC transporter signature motif; other site 645462006239 Walker B; other site 645462006240 D-loop; other site 645462006241 H-loop/switch region; other site 645462006242 ABC transporter; Region: ABC_tran_2; pfam12848 645462006243 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 645462006244 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 645462006245 putative MPT binding site; other site 645462006246 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 645462006247 Ligand binding site; other site 645462006248 metal-binding site 645462006249 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 645462006250 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 645462006251 Probable transposase; Region: OrfB_IS605; pfam01385 645462006252 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 645462006253 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 645462006254 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 645462006255 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 645462006256 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 645462006257 FAD binding domain; Region: FAD_binding_4; cl19922 645462006258 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 645462006259 Sulfate transporter family; Region: Sulfate_transp; cl19250 645462006260 xanthine permease; Region: pbuX; TIGR03173 645462006261 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 645462006262 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 645462006263 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 645462006264 phosphate binding site [ion binding]; other site 645462006265 putative chlorohydrolase/aminohydrolase; Validated; Region: PRK07203 645462006266 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 645462006267 active site 645462006268 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 645462006269 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 645462006270 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 645462006271 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 645462006272 FAD binding domain; Region: FAD_binding_4; cl19922 645462006273 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 645462006274 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 645462006275 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 645462006276 catalytic loop [active] 645462006277 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 645462006278 iron binding site [ion binding]; other site 645462006279 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 645462006280 N-ethylammeline chlorohydrolase; Provisional; Region: PRK07228 645462006281 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 645462006282 active site 645462006283 putative substrate binding pocket [chemical binding]; other site 645462006284 phenylhydantoinase; Validated; Region: PRK08323 645462006285 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 645462006286 tetramer interface [polypeptide binding]; other site 645462006287 active site 645462006288 peptidase; Reviewed; Region: PRK13004 645462006289 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 645462006290 putative metal binding site [ion binding]; other site 645462006291 putative dimer interface [polypeptide binding]; other site 645462006292 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 645462006293 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 645462006294 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 645462006295 catalytic residue [active] 645462006296 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 645462006297 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 645462006298 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 645462006299 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 645462006300 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 645462006301 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 645462006302 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 645462006303 catalytic loop [active] 645462006304 iron binding site [ion binding]; other site 645462006305 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 645462006306 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 645462006307 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 645462006308 active site 645462006309 putative substrate binding pocket [chemical binding]; other site 645462006310 Sulfate transporter family; Region: Sulfate_transp; cl19250 645462006311 xanthine permease; Region: pbuX; TIGR03173 645462006312 Sulfate transporter family; Region: Sulfate_transp; cl19250 645462006313 xanthine permease; Region: pbuX; TIGR03173 645462006314 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 645462006315 Walker A motif; other site 645462006316 ATP binding site [chemical binding]; other site 645462006317 Walker B motif; other site 645462006318 arginine finger; other site 645462006319 McrBC 5-methylcytosine restriction system component; Region: McrBC; pfam10117 645462006320 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 645462006321 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 645462006322 Predicted transcriptional regulator [Transcription]; Region: COG2378 645462006323 HTH domain; Region: HTH_11; pfam08279 645462006324 WYL domain; Region: WYL; pfam13280 645462006325 QueT transporter; Region: QueT; pfam06177 645462006326 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 645462006327 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 645462006328 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 645462006329 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 645462006330 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 645462006331 catalytic loop [active] 645462006332 iron binding site [ion binding]; other site 645462006333 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 645462006334 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 645462006335 FAD binding domain; Region: FAD_binding_4; cl19922 645462006336 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 645462006337 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 645462006338 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 645462006339 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 645462006340 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 645462006341 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 645462006342 Walker A/P-loop; other site 645462006343 ATP binding site [chemical binding]; other site 645462006344 Q-loop/lid; other site 645462006345 ABC transporter signature motif; other site 645462006346 Walker B; other site 645462006347 D-loop; other site 645462006348 H-loop/switch region; other site 645462006349 helicase 45; Provisional; Region: PTZ00424 645462006350 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 645462006351 ATP binding site [chemical binding]; other site 645462006352 putative Mg++ binding site [ion binding]; other site 645462006353 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 645462006354 nucleotide binding region [chemical binding]; other site 645462006355 ATP-binding site [chemical binding]; other site 645462006356 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 645462006357 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 645462006358 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 645462006359 anion transporter; Region: dass; TIGR00785 645462006360 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 645462006361 transmembrane helices; other site 645462006362 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 645462006363 active site 645462006364 intersubunit interactions; other site 645462006365 catalytic residue [active] 645462006366 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 645462006367 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 645462006368 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 645462006369 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 645462006370 dimer interface [polypeptide binding]; other site 645462006371 phosphorylation site [posttranslational modification] 645462006372 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 645462006373 ATP binding site [chemical binding]; other site 645462006374 G-X-G motif; other site 645462006375 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462006376 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 645462006377 active site 645462006378 phosphorylation site [posttranslational modification] 645462006379 intermolecular recognition site; other site 645462006380 dimerization interface [polypeptide binding]; other site 645462006381 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 645462006382 DNA binding site [nucleotide binding] 645462006383 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 645462006384 metal-binding site [ion binding] 645462006385 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 645462006386 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 645462006387 metal-binding site [ion binding] 645462006388 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 645462006389 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 645462006390 motif II; other site 645462006391 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 645462006392 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 645462006393 G1 box; other site 645462006394 putative GEF interaction site [polypeptide binding]; other site 645462006395 GTP/Mg2+ binding site [chemical binding]; other site 645462006396 Switch I region; other site 645462006397 G2 box; other site 645462006398 G3 box; other site 645462006399 Switch II region; other site 645462006400 G4 box; other site 645462006401 G5 box; other site 645462006402 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 645462006403 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 645462006404 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 645462006405 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 645462006406 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 645462006407 threonine synthase; Validated; Region: PRK09225 645462006408 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 645462006409 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462006410 catalytic residue [active] 645462006411 homoserine kinase; Provisional; Region: PRK01212 645462006412 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 645462006413 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 645462006414 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 645462006415 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 645462006416 FMN binding site [chemical binding]; other site 645462006417 substrate binding site [chemical binding]; other site 645462006418 putative catalytic residue [active] 645462006419 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 645462006420 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 645462006421 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 645462006422 Cl binding site [ion binding]; other site 645462006423 oligomer interface [polypeptide binding]; other site 645462006424 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 645462006425 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 645462006426 binding surface 645462006427 TPR motif; other site 645462006428 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 645462006429 binding surface 645462006430 TPR motif; other site 645462006431 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 645462006432 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 645462006433 binding surface 645462006434 TPR motif; other site 645462006435 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 645462006436 binding surface 645462006437 TPR motif; other site 645462006438 Predicted permeases [General function prediction only]; Region: COG0679 645462006439 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 645462006440 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 645462006441 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 645462006442 Coenzyme A binding pocket [chemical binding]; other site 645462006443 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 645462006444 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 645462006445 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 645462006446 RIP metalloprotease RseP; Region: TIGR00054 645462006447 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 645462006448 active site 645462006449 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 645462006450 protein binding site [polypeptide binding]; other site 645462006451 putative substrate binding region [chemical binding]; other site 645462006452 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 645462006453 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 645462006454 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 645462006455 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 645462006456 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 645462006457 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 645462006458 metal binding site [ion binding]; metal-binding site 645462006459 active site 645462006460 I-site; other site 645462006461 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 645462006462 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 645462006463 Cis (Z)-Isoprenyl Diphosphate Synthases; Region: Cis_IPPS; cd00475 645462006464 active site 645462006465 dimer interface [polypeptide binding]; other site 645462006466 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 645462006467 hinge region; other site 645462006468 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 645462006469 putative nucleotide binding site [chemical binding]; other site 645462006470 uridine monophosphate binding site [chemical binding]; other site 645462006471 homohexameric interface [polypeptide binding]; other site 645462006472 elongation factor Ts; Provisional; Region: tsf; PRK09377 645462006473 UBA/TS-N domain; Region: UBA; pfam00627 645462006474 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 645462006475 rRNA interaction site [nucleotide binding]; other site 645462006476 S8 interaction site; other site 645462006477 putative laminin-1 binding site; other site 645462006478 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 645462006479 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl19191 645462006480 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 645462006481 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 645462006482 Ion channel; Region: Ion_trans_2; pfam07885 645462006483 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 645462006484 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 645462006485 non-specific DNA binding site [nucleotide binding]; other site 645462006486 salt bridge; other site 645462006487 sequence-specific DNA binding site [nucleotide binding]; other site 645462006488 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 645462006489 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 645462006490 Domain of unknown function DUF; Region: DUF204; pfam02659 645462006491 DNA-binding domain of DNA mismatch repair MUTS family; Region: MUTSd; smart00533 645462006492 MutS domain III; Region: MutS_III; pfam05192 645462006493 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462006494 Walker A/P-loop; other site 645462006495 ATP binding site [chemical binding]; other site 645462006496 Q-loop/lid; other site 645462006497 ABC transporter signature motif; other site 645462006498 Walker B; other site 645462006499 D-loop; other site 645462006500 H-loop/switch region; other site 645462006501 hypothetical protein; Reviewed; Region: PRK09588 645462006502 tRNA-splicing ligase RtcB; Region: RtcB; pfam01139 645462006503 Catalytic domain of Protein Kinases; Region: PKc; cd00180 645462006504 active site 645462006505 ATP binding site [chemical binding]; other site 645462006506 substrate binding site [chemical binding]; other site 645462006507 activation loop (A-loop); other site 645462006508 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 645462006509 VanW like protein; Region: VanW; pfam04294 645462006510 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 645462006511 putative catalytic site [active] 645462006512 putative metal binding site [ion binding]; other site 645462006513 putative phosphate binding site [ion binding]; other site 645462006514 Protein of unknown function (DUF819); Region: DUF819; cl02317 645462006515 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 645462006516 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 645462006517 putative oligomer interface [polypeptide binding]; other site 645462006518 putative active site [active] 645462006519 metal binding site [ion binding]; metal-binding site 645462006520 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 645462006521 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 645462006522 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 645462006523 G1 box; other site 645462006524 GTP/Mg2+ binding site [chemical binding]; other site 645462006525 Switch I region; other site 645462006526 G2 box; other site 645462006527 Switch II region; other site 645462006528 G3 box; other site 645462006529 G4 box; other site 645462006530 G5 box; other site 645462006531 [FeFe] hydrogenase H-cluster radical SAM maturase HydE; Region: rSAM_HydE; TIGR03956 645462006532 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 645462006533 FeS/SAM binding site; other site 645462006534 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 645462006535 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 645462006536 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 645462006537 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 645462006538 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 645462006539 inhibitor-cofactor binding pocket; inhibition site 645462006540 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462006541 catalytic residue [active] 645462006542 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 645462006543 VanZ like family; Region: VanZ; pfam04892 645462006544 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 645462006545 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 645462006546 Coenzyme A binding pocket [chemical binding]; other site 645462006547 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 645462006548 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 645462006549 DHHA1 domain; Region: DHHA1; pfam02272 645462006550 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 645462006551 tetramer (dimer of dimers) interface [polypeptide binding]; other site 645462006552 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 645462006553 NAD binding site [chemical binding]; other site 645462006554 dimer interface [polypeptide binding]; other site 645462006555 substrate binding site [chemical binding]; other site 645462006556 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 645462006557 non-specific DNA binding site [nucleotide binding]; other site 645462006558 salt bridge; other site 645462006559 sequence-specific DNA binding site [nucleotide binding]; other site 645462006560 Domain of unknown function (DUF955); Region: DUF955; cl01076 645462006561 methionine sulfoxide reductase A; Provisional; Region: PRK14054 645462006562 methionine sulfoxide reductase B; Provisional; Region: PRK00222 645462006563 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 645462006564 active site 645462006565 nucleophile elbow; other site 645462006566 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 645462006567 cubane metal cluster [ion binding]; other site 645462006568 hybrid metal cluster; other site 645462006569 Ferredoxin [Energy production and conversion]; Region: COG1146 645462006570 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 645462006571 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 645462006572 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 645462006573 ligand binding site [chemical binding]; other site 645462006574 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 645462006575 non-specific DNA interactions [nucleotide binding]; other site 645462006576 DNA binding site [nucleotide binding] 645462006577 sequence specific DNA binding site [nucleotide binding]; other site 645462006578 putative cAMP binding site [chemical binding]; other site 645462006579 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 645462006580 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 645462006581 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 645462006582 Walker A/P-loop; other site 645462006583 ATP binding site [chemical binding]; other site 645462006584 Q-loop/lid; other site 645462006585 ABC transporter signature motif; other site 645462006586 Walker B; other site 645462006587 D-loop; other site 645462006588 H-loop/switch region; other site 645462006589 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 645462006590 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 645462006591 metal binding site [ion binding]; metal-binding site 645462006592 dimer interface [polypeptide binding]; other site 645462006593 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 645462006594 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 645462006595 substrate binding pocket [chemical binding]; other site 645462006596 membrane-bound complex binding site; other site 645462006597 hinge residues; other site 645462006598 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 645462006599 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 645462006600 dimer interface [polypeptide binding]; other site 645462006601 conserved gate region; other site 645462006602 putative PBP binding loops; other site 645462006603 ABC-ATPase subunit interface; other site 645462006604 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 645462006605 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 645462006606 dimer interface [polypeptide binding]; other site 645462006607 conserved gate region; other site 645462006608 putative PBP binding loops; other site 645462006609 ABC-ATPase subunit interface; other site 645462006610 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 645462006611 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 645462006612 substrate binding pocket [chemical binding]; other site 645462006613 membrane-bound complex binding site; other site 645462006614 hinge residues; other site 645462006615 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 645462006616 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 645462006617 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 645462006618 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 645462006619 molybdopterin cofactor binding site; other site 645462006620 Molydopterin dinucleotide binding domain; Region: Molydop_binding; pfam01568 645462006621 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 645462006622 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 645462006623 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 645462006624 ATP binding site [chemical binding]; other site 645462006625 putative Mg++ binding site [ion binding]; other site 645462006626 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 645462006627 nucleotide binding region [chemical binding]; other site 645462006628 ATP-binding site [chemical binding]; other site 645462006629 Putative lysophospholipase; Region: Hydrolase_4; cl19140 645462006630 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 645462006631 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 645462006632 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 645462006633 ATP binding site [chemical binding]; other site 645462006634 Mg++ binding site [ion binding]; other site 645462006635 motif III; other site 645462006636 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 645462006637 nucleotide binding region [chemical binding]; other site 645462006638 ATP-binding site [chemical binding]; other site 645462006639 RNA recognition motif in Bacillus subtilis ATP-dependent RNA helicase YxiN and similar proteins; Region: RRM_BsYxiN_like; cd12500 645462006640 RNA binding site [nucleotide binding]; other site 645462006641 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 645462006642 active site 645462006643 metal binding site [ion binding]; metal-binding site 645462006644 Domain of unknown function DUF11; Region: DUF11; cl17728 645462006645 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 645462006646 Glycosyl hydrolases related to GH101 family, GHL1-GHL3; Region: GHL1-3; pfam11308 645462006647 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 645462006648 maltose phosphorylase; Provisional; Region: PRK13807 645462006649 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 645462006650 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 645462006651 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 645462006652 beta-phosphoglucomutase; Region: bPGM; TIGR01990 645462006653 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 645462006654 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 645462006655 homodimer interface [polypeptide binding]; other site 645462006656 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 645462006657 Alpha amylase, catalytic domain; Region: Alpha-amylase; pfam00128 645462006658 active site 645462006659 homodimer interface [polypeptide binding]; other site 645462006660 catalytic site [active] 645462006661 histidinol-phosphatase; Provisional; Region: PRK05588 645462006662 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 645462006663 active site 645462006664 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 645462006665 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462006666 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462006667 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462006668 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 645462006669 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 645462006670 non-specific DNA interactions [nucleotide binding]; other site 645462006671 DNA binding site [nucleotide binding] 645462006672 sequence specific DNA binding site [nucleotide binding]; other site 645462006673 putative cAMP binding site [chemical binding]; other site 645462006674 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 645462006675 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 645462006676 nucleotide binding site [chemical binding]; other site 645462006677 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 645462006678 Ferritin-like domain; Region: Ferritin; pfam00210 645462006679 ferroxidase diiron center [ion binding]; other site 645462006680 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 645462006681 CoA binding domain; Region: CoA_binding_2; pfam13380 645462006682 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 645462006683 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 645462006684 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 645462006685 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 645462006686 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 645462006687 TPP-binding site [chemical binding]; other site 645462006688 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 645462006689 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 645462006690 dimer interface [polypeptide binding]; other site 645462006691 PYR/PP interface [polypeptide binding]; other site 645462006692 TPP binding site [chemical binding]; other site 645462006693 substrate binding site [chemical binding]; other site 645462006694 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 645462006695 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 645462006696 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 645462006697 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 645462006698 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 645462006699 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462006700 homodimer interface [polypeptide binding]; other site 645462006701 catalytic residue [active] 645462006702 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 645462006703 MFS/sugar transport protein; Region: MFS_2; pfam13347 645462006704 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 645462006705 Na binding site [ion binding]; other site 645462006706 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 645462006707 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 645462006708 Putative esterase; Region: Esterase; pfam00756 645462006709 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819; cl19187 645462006710 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 645462006711 Domain of unknown function DUF20; Region: UPF0118; pfam01594 645462006712 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 645462006713 NAD(P) binding site [chemical binding]; other site 645462006714 catalytic residues [active] 645462006715 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 645462006716 Transcriptional regulators [Transcription]; Region: MarR; COG1846 645462006717 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 645462006718 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 645462006719 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 645462006720 HflX GTPase family; Region: HflX; cd01878 645462006721 G1 box; other site 645462006722 GTP/Mg2+ binding site [chemical binding]; other site 645462006723 Switch I region; other site 645462006724 G2 box; other site 645462006725 G3 box; other site 645462006726 Switch II region; other site 645462006727 G4 box; other site 645462006728 G5 box; other site 645462006729 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 645462006730 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 645462006731 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 645462006732 Walker A/P-loop; other site 645462006733 ATP binding site [chemical binding]; other site 645462006734 Q-loop/lid; other site 645462006735 ABC transporter signature motif; other site 645462006736 Walker B; other site 645462006737 D-loop; other site 645462006738 H-loop/switch region; other site 645462006739 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 645462006740 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 645462006741 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462006742 Walker A/P-loop; other site 645462006743 ATP binding site [chemical binding]; other site 645462006744 Q-loop/lid; other site 645462006745 ABC transporter signature motif; other site 645462006746 Walker B; other site 645462006747 D-loop; other site 645462006748 H-loop/switch region; other site 645462006749 Transcriptional regulators [Transcription]; Region: MarR; COG1846 645462006750 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 645462006751 putative DNA binding site [nucleotide binding]; other site 645462006752 putative Zn2+ binding site [ion binding]; other site 645462006753 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 645462006754 active site clefts [active] 645462006755 zinc binding site [ion binding]; other site 645462006756 dimer interface [polypeptide binding]; other site 645462006757 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 645462006758 non-specific DNA binding site [nucleotide binding]; other site 645462006759 salt bridge; other site 645462006760 sequence-specific DNA binding site [nucleotide binding]; other site 645462006761 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 645462006762 non-specific DNA binding site [nucleotide binding]; other site 645462006763 salt bridge; other site 645462006764 sequence-specific DNA binding site [nucleotide binding]; other site 645462006765 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 645462006766 active site 645462006767 catalytic residue [active] 645462006768 dimer interface [polypeptide binding]; other site 645462006769 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 645462006770 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 645462006771 trimer interface [polypeptide binding]; other site 645462006772 active site 645462006773 substrate binding site [chemical binding]; other site 645462006774 CoA binding site [chemical binding]; other site 645462006775 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 645462006776 Radical SAM superfamily; Region: Radical_SAM; pfam04055 645462006777 FeS/SAM binding site; other site 645462006778 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 645462006779 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 645462006780 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 645462006781 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 645462006782 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 645462006783 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 645462006784 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 645462006785 4Fe-4S binding domain; Region: Fer4; pfam00037 645462006786 anaerobic sulfite reductase subunit B; Provisional; Region: PRK08221 645462006787 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 645462006788 FAD binding pocket [chemical binding]; other site 645462006789 FAD binding motif [chemical binding]; other site 645462006790 phosphate binding motif [ion binding]; other site 645462006791 beta-alpha-beta structure motif; other site 645462006792 NAD binding pocket [chemical binding]; other site 645462006793 Iron coordination center [ion binding]; other site 645462006794 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 645462006795 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 645462006796 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 645462006797 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 645462006798 ligand binding site [chemical binding]; other site 645462006799 flexible hinge region; other site 645462006800 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 645462006801 putative switch regulator; other site 645462006802 non-specific DNA interactions [nucleotide binding]; other site 645462006803 DNA binding site [nucleotide binding] 645462006804 sequence specific DNA binding site [nucleotide binding]; other site 645462006805 putative cAMP binding site [chemical binding]; other site 645462006806 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 645462006807 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 645462006808 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 645462006809 putative active site [active] 645462006810 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 645462006811 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 645462006812 nucleotide binding site [chemical binding]; other site 645462006813 Domain of unknown function (DUF303); Region: DUF303; pfam03629 645462006814 Domain of unknown function (DUF386); Region: DUF386; cl01047 645462006815 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u3; cd11495 645462006816 Na binding site [ion binding]; other site 645462006817 N-acetylneuraminate lyase; Provisional; Region: PRK04147 645462006818 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 645462006819 inhibitor site; inhibition site 645462006820 active site 645462006821 dimer interface [polypeptide binding]; other site 645462006822 catalytic residue [active] 645462006823 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 645462006824 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 645462006825 putative active site cavity [active] 645462006826 Double zinc ribbon; Region: DZR; pfam12773 645462006827 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 645462006828 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 645462006829 metal binding site [ion binding]; metal-binding site 645462006830 active site 645462006831 I-site; other site 645462006832 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 645462006833 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 645462006834 putative dimer interface [polypeptide binding]; other site 645462006835 putative anticodon binding site; other site 645462006836 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 645462006837 homodimer interface [polypeptide binding]; other site 645462006838 motif 1; other site 645462006839 motif 2; other site 645462006840 active site 645462006841 motif 3; other site 645462006842 Domain of unknown function (DUF3787); Region: DUF3787; pfam12655 645462006843 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 645462006844 active site 645462006845 catalytic triad [active] 645462006846 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 645462006847 active site 645462006848 catalytic triad [active] 645462006849 Peptidase S8 family domain in CspA-like proteins; Region: Peptidases_S8_CspA-like; cd07478 645462006850 active site 645462006851 catalytic triad [active] 645462006852 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 645462006853 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 645462006854 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 645462006855 Walker A motif; other site 645462006856 ATP binding site [chemical binding]; other site 645462006857 Walker B motif; other site 645462006858 arginine finger; other site 645462006859 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 645462006860 Domain of unknown function DUF20; Region: UPF0118; pfam01594 645462006861 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 645462006862 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 645462006863 FeS/SAM binding site; other site 645462006864 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 645462006865 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 645462006866 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 645462006867 DNA-binding site [nucleotide binding]; DNA binding site 645462006868 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 645462006869 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462006870 homodimer interface [polypeptide binding]; other site 645462006871 catalytic residue [active] 645462006872 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 645462006873 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 645462006874 Cupin domain; Region: Cupin_2; pfam07883 645462006875 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 645462006876 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 645462006877 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 645462006878 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 645462006879 active site 645462006880 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 645462006881 Major Facilitator Superfamily; Region: MFS_1; pfam07690 645462006882 putative substrate translocation pore; other site 645462006883 POT family; Region: PTR2; cl17359 645462006884 SurA N-terminal domain; Region: SurA_N_3; cl07813 645462006885 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 645462006886 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 645462006887 FAD dependent oxidoreductase; Region: DAO; pfam01266 645462006888 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 645462006889 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 645462006890 [2Fe-2S] cluster binding site [ion binding]; other site 645462006891 CAAX protease self-immunity; Region: Abi; pfam02517 645462006892 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 645462006893 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 645462006894 active site 645462006895 phosphorylation site [posttranslational modification] 645462006896 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 645462006897 active site 645462006898 P-loop; other site 645462006899 phosphorylation site [posttranslational modification] 645462006900 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 645462006901 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 645462006902 putative substrate binding site [chemical binding]; other site 645462006903 putative ATP binding site [chemical binding]; other site 645462006904 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 645462006905 HTH domain; Region: HTH_11; pfam08279 645462006906 Mga helix-turn-helix domain; Region: Mga; pfam05043 645462006907 PRD domain; Region: PRD; pfam00874 645462006908 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 645462006909 active site 645462006910 P-loop; other site 645462006911 phosphorylation site [posttranslational modification] 645462006912 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 645462006913 active site 645462006914 phosphorylation site [posttranslational modification] 645462006915 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 645462006916 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 645462006917 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 645462006918 Domain of unknown function DUF20; Region: UPF0118; cl00465 645462006919 DNA topoisomerase III; Provisional; Region: PRK07726 645462006920 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 645462006921 active site 645462006922 putative interdomain interaction site [polypeptide binding]; other site 645462006923 putative metal-binding site [ion binding]; other site 645462006924 putative nucleotide binding site [chemical binding]; other site 645462006925 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 645462006926 domain I; other site 645462006927 DNA binding groove [nucleotide binding] 645462006928 phosphate binding site [ion binding]; other site 645462006929 domain II; other site 645462006930 domain III; other site 645462006931 nucleotide binding site [chemical binding]; other site 645462006932 catalytic site [active] 645462006933 domain IV; other site 645462006934 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 645462006935 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 645462006936 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 645462006937 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 645462006938 intersubunit interface [polypeptide binding]; other site 645462006939 active site 645462006940 Zn2+ binding site [ion binding]; other site 645462006941 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 645462006942 intersubunit interface [polypeptide binding]; other site 645462006943 active site 645462006944 Zn2+ binding site [ion binding]; other site 645462006945 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 645462006946 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 645462006947 putative NAD(P) binding site [chemical binding]; other site 645462006948 catalytic Zn binding site [ion binding]; other site 645462006949 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 645462006950 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 645462006951 active site 645462006952 P-loop; other site 645462006953 phosphorylation site [posttranslational modification] 645462006954 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 645462006955 active site 645462006956 phosphorylation site [posttranslational modification] 645462006957 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 645462006958 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 645462006959 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 645462006960 Walker A motif; other site 645462006961 ATP binding site [chemical binding]; other site 645462006962 Walker B motif; other site 645462006963 arginine finger; other site 645462006964 PRD domain; Region: PRD; pfam00874 645462006965 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 645462006966 active pocket/dimerization site; other site 645462006967 active site 645462006968 phosphorylation site [posttranslational modification] 645462006969 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 645462006970 active site 645462006971 phosphorylation site [posttranslational modification] 645462006972 Domain of unknown function (DUF3284); Region: DUF3284; pfam11687 645462006973 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 645462006974 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 645462006975 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 645462006976 DNA-binding site [nucleotide binding]; DNA binding site 645462006977 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 645462006978 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462006979 homodimer interface [polypeptide binding]; other site 645462006980 catalytic residue [active] 645462006981 AzlC protein; Region: AzlC; pfam03591 645462006982 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 645462006983 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462006984 HAMP domain; Region: HAMP; pfam00672 645462006985 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 645462006986 dimer interface [polypeptide binding]; other site 645462006987 phosphorylation site [posttranslational modification] 645462006988 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 645462006989 ATP binding site [chemical binding]; other site 645462006990 Mg2+ binding site [ion binding]; other site 645462006991 G-X-G motif; other site 645462006992 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462006993 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 645462006994 active site 645462006995 phosphorylation site [posttranslational modification] 645462006996 intermolecular recognition site; other site 645462006997 dimerization interface [polypeptide binding]; other site 645462006998 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 645462006999 DNA binding site [nucleotide binding] 645462007000 Penicillinase repressor; Region: Pencillinase_R; cl17580 645462007001 Penicillinase repressor; Region: Penicillinase_R; cl17580 645462007002 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 645462007003 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 645462007004 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 645462007005 Protein of unknown function (DUF3796); Region: DUF3796; pfam12676 645462007006 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 645462007007 non-specific DNA binding site [nucleotide binding]; other site 645462007008 salt bridge; other site 645462007009 sequence-specific DNA binding site [nucleotide binding]; other site 645462007010 putative transposase OrfB; Reviewed; Region: PHA02517 645462007011 HTH-like domain; Region: HTH_21; pfam13276 645462007012 Integrase core domain; Region: rve; pfam00665 645462007013 Integrase core domain; Region: rve_2; pfam13333 645462007014 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 645462007015 Helix-turn-helix domain; Region: HTH_28; pfam13518 645462007016 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 645462007017 Transposase; Region: HTH_Tnp_1; cl17663 645462007018 Helix-turn-helix domain; Region: HTH_28; pfam13518 645462007019 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 645462007020 DNA-binding site [nucleotide binding]; DNA binding site 645462007021 RNA-binding motif; other site 645462007022 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 645462007023 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 645462007024 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 645462007025 substrate binding pocket [chemical binding]; other site 645462007026 membrane-bound complex binding site; other site 645462007027 hinge residues; other site 645462007028 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 645462007029 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 645462007030 dimer interface [polypeptide binding]; other site 645462007031 conserved gate region; other site 645462007032 putative PBP binding loops; other site 645462007033 ABC-ATPase subunit interface; other site 645462007034 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462007035 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 645462007036 Walker A/P-loop; other site 645462007037 ATP binding site [chemical binding]; other site 645462007038 Q-loop/lid; other site 645462007039 ABC transporter signature motif; other site 645462007040 Walker B; other site 645462007041 D-loop; other site 645462007042 H-loop/switch region; other site 645462007043 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 645462007044 Domain of unknown function (DUF364); Region: DUF364; pfam04016 645462007045 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 645462007046 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462007047 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 645462007048 active site 645462007049 phosphorylation site [posttranslational modification] 645462007050 intermolecular recognition site; other site 645462007051 dimerization interface [polypeptide binding]; other site 645462007052 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 645462007053 DNA binding site [nucleotide binding] 645462007054 Polysaccharide biosynthesis C-terminal domain; Region: Polysacc_synt_C; pfam14667 645462007055 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462007056 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 645462007057 dimerization interface [polypeptide binding]; other site 645462007058 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 645462007059 dimer interface [polypeptide binding]; other site 645462007060 phosphorylation site [posttranslational modification] 645462007061 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 645462007062 ATP binding site [chemical binding]; other site 645462007063 Mg2+ binding site [ion binding]; other site 645462007064 G-X-G motif; other site 645462007065 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 645462007066 active site 645462007067 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 645462007068 substrate binding site [chemical binding]; other site 645462007069 metal binding site [ion binding]; metal-binding site 645462007070 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 645462007071 substrate binding site [chemical binding]; other site 645462007072 hexamer interface [polypeptide binding]; other site 645462007073 metal binding site [ion binding]; metal-binding site 645462007074 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 645462007075 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 645462007076 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 645462007077 PYR/PP interface [polypeptide binding]; other site 645462007078 dimer interface [polypeptide binding]; other site 645462007079 TPP binding site [chemical binding]; other site 645462007080 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 645462007081 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 645462007082 TPP-binding site [chemical binding]; other site 645462007083 dimer interface [polypeptide binding]; other site 645462007084 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 645462007085 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH4; cd08258 645462007086 putative NAD(P) binding site [chemical binding]; other site 645462007087 catalytic Zn binding site [ion binding]; other site 645462007088 structural Zn binding site [ion binding]; other site 645462007089 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 645462007090 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 645462007091 putative NAD(P) binding site [chemical binding]; other site 645462007092 catalytic Zn binding site [ion binding]; other site 645462007093 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 645462007094 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 645462007095 active site 645462007096 P-loop; other site 645462007097 phosphorylation site [posttranslational modification] 645462007098 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 645462007099 active site 645462007100 phosphorylation site [posttranslational modification] 645462007101 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 645462007102 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 645462007103 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 645462007104 Walker A motif; other site 645462007105 ATP binding site [chemical binding]; other site 645462007106 Walker B motif; other site 645462007107 arginine finger; other site 645462007108 PRD domain; Region: PRD; pfam00874 645462007109 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 645462007110 active pocket/dimerization site; other site 645462007111 active site 645462007112 phosphorylation site [posttranslational modification] 645462007113 PTS system, Lactose/Cellobiose specific IIB subunit; Region: PTS_IIB; pfam02302 645462007114 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 645462007115 active site 645462007116 phosphorylation site [posttranslational modification] 645462007117 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 645462007118 active site 645462007119 intersubunit interactions; other site 645462007120 catalytic residue [active] 645462007121 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 645462007122 active site 645462007123 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 645462007124 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 645462007125 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 645462007126 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 645462007127 active site 645462007128 phosphorylation site [posttranslational modification] 645462007129 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 645462007130 HTH domain; Region: HTH_11; cl17392 645462007131 PRD domain; Region: PRD; pfam00874 645462007132 PRD domain; Region: PRD; pfam00874 645462007133 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 645462007134 active site 645462007135 P-loop; other site 645462007136 phosphorylation site [posttranslational modification] 645462007137 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 645462007138 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 645462007139 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 645462007140 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 645462007141 active site 645462007142 P-loop; other site 645462007143 phosphorylation site [posttranslational modification] 645462007144 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07107 645462007145 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 645462007146 active site 645462007147 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 645462007148 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 645462007149 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 645462007150 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 645462007151 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 645462007152 active site 645462007153 NAD binding site [chemical binding]; other site 645462007154 metal binding site [ion binding]; metal-binding site 645462007155 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 645462007156 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 645462007157 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 645462007158 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 645462007159 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 645462007160 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 645462007161 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 645462007162 putative catalytic cysteine [active] 645462007163 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 645462007164 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 645462007165 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 645462007166 Predicted permease [General function prediction only]; Region: COG2985 645462007167 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 645462007168 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 645462007169 Transcriptional regulator [Transcription]; Region: LysR; COG0583 645462007170 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 645462007171 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 645462007172 dimerization interface [polypeptide binding]; other site 645462007173 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 645462007174 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 645462007175 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 645462007176 active site 645462007177 Fatty acid synthesis protein; Region: FA_synthesis; cl17261 645462007178 "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 645462007179 dimer interface [polypeptide binding]; other site 645462007180 active site 645462007181 Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); Region: GRDB; pfam07355 645462007182 glycine/sarcosine/betaine reductase complex protein A; Reviewed; Region: PRK13265 645462007183 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 645462007184 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 645462007185 catalytic residues [active] 645462007186 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 645462007187 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 645462007188 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 645462007189 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 645462007190 active site 645462007191 Zn binding site [ion binding]; other site 645462007192 sugar phosphate phosphatase; Provisional; Region: PRK10513 645462007193 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 645462007194 active site 645462007195 motif I; other site 645462007196 motif II; other site 645462007197 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 645462007198 Alkylmercury lyase; Region: MerB; pfam03243 645462007199 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 645462007200 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 645462007201 Walker A/P-loop; other site 645462007202 ATP binding site [chemical binding]; other site 645462007203 Q-loop/lid; other site 645462007204 ABC transporter signature motif; other site 645462007205 Walker B; other site 645462007206 D-loop; other site 645462007207 H-loop/switch region; other site 645462007208 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 645462007209 substrate binding pocket [chemical binding]; other site 645462007210 membrane-bound complex binding site; other site 645462007211 hinge residues; other site 645462007212 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 645462007213 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 645462007214 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 645462007215 Predicted permeases [General function prediction only]; Region: COG0701 645462007216 DsrE/DsrF-like family; Region: DrsE; cl00672 645462007217 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 645462007218 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 645462007219 dimerization interface [polypeptide binding]; other site 645462007220 active site 645462007221 L-aspartate oxidase; Provisional; Region: PRK06175 645462007222 FAD binding domain; Region: FAD_binding_2; pfam00890 645462007223 Quinolinate synthetase A protein; Region: NadA; pfam02445 645462007224 Carbon starvation protein CstA; Region: CstA; pfam02554 645462007225 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 645462007226 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 645462007227 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 645462007228 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 645462007229 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 645462007230 nudix motif; other site 645462007231 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 645462007232 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 645462007233 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 645462007234 butyrate kinase; Provisional; Region: PRK03011 645462007235 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 645462007236 nucleotide binding site [chemical binding]; other site 645462007237 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 645462007238 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 645462007239 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 645462007240 dimer interface [polypeptide binding]; other site 645462007241 PYR/PP interface [polypeptide binding]; other site 645462007242 TPP binding site [chemical binding]; other site 645462007243 substrate binding site [chemical binding]; other site 645462007244 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 645462007245 TPP-binding site; other site 645462007246 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 645462007247 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 645462007248 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 645462007249 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462007250 homodimer interface [polypeptide binding]; other site 645462007251 catalytic residue [active] 645462007252 Propionate catabolism activator; Region: PrpR_N; pfam06506 645462007253 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 645462007254 PAS domain; Region: PAS; smart00091 645462007255 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 645462007256 Walker A motif; other site 645462007257 ATP binding site [chemical binding]; other site 645462007258 Walker B motif; other site 645462007259 arginine finger; other site 645462007260 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 645462007261 metal binding site [ion binding]; metal-binding site 645462007262 active site 645462007263 I-site; other site 645462007264 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 645462007265 metal binding site [ion binding]; metal-binding site 645462007266 active site 645462007267 I-site; other site 645462007268 Protein of unknown function (DUF3785); Region: DUF3785; pfam12653 645462007269 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 645462007270 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 645462007271 active site 645462007272 FMN binding site [chemical binding]; other site 645462007273 substrate binding site [chemical binding]; other site 645462007274 putative catalytic residues [active] 645462007275 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 645462007276 Penicillinase repressor; Region: Penicillinase_R; cl17580 645462007277 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 645462007278 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 645462007279 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 645462007280 Penicillinase repressor; Region: Pencillinase_R; pfam03965 645462007281 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 645462007282 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 645462007283 Transglycosylase; Region: Transgly; pfam00912 645462007284 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 645462007285 active site 645462007286 catalytic site [active] 645462007287 substrate binding site [chemical binding]; other site 645462007288 MORN repeat; Region: MORN; cl14787 645462007289 Flavin Reductases; Region: FlaRed; cl00801 645462007290 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 645462007291 active site 645462007292 catalytic site [active] 645462007293 substrate binding site [chemical binding]; other site 645462007294 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 645462007295 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 645462007296 Ligand Binding Site [chemical binding]; other site 645462007297 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 645462007298 CotJB protein; Region: CotJB; pfam12652 645462007299 Mn-containing catalase [Inorganic ion transport and metabolism]; Region: COG3546 645462007300 dinuclear metal binding motif [ion binding]; other site 645462007301 Bacterial SH3 domain; Region: SH3_3; pfam08239 645462007302 Bacterial SH3 domain; Region: SH3_3; pfam08239 645462007303 Bacterial SH3 domain; Region: SH3_3; pfam08239 645462007304 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 645462007305 NlpC/P60 family; Region: NLPC_P60; pfam00877 645462007306 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 645462007307 trimer interface [polypeptide binding]; other site 645462007308 active site 645462007309 DNA topoisomerase III; Provisional; Region: PRK07726 645462007310 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 645462007311 active site 645462007312 putative interdomain interaction site [polypeptide binding]; other site 645462007313 putative metal-binding site [ion binding]; other site 645462007314 putative nucleotide binding site [chemical binding]; other site 645462007315 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 645462007316 domain I; other site 645462007317 DNA binding groove [nucleotide binding] 645462007318 phosphate binding site [ion binding]; other site 645462007319 domain II; other site 645462007320 domain III; other site 645462007321 nucleotide binding site [chemical binding]; other site 645462007322 catalytic site [active] 645462007323 domain IV; other site 645462007324 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 645462007325 Transcriptional regulators [Transcription]; Region: MarR; COG1846 645462007326 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 645462007327 dimerization interface [polypeptide binding]; other site 645462007328 putative Zn2+ binding site [ion binding]; other site 645462007329 putative DNA binding site [nucleotide binding]; other site 645462007330 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 645462007331 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 645462007332 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 645462007333 HlyD family secretion protein; Region: HlyD_3; pfam13437 645462007334 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 645462007335 MMPL family; Region: MMPL; cl14618 645462007336 MMPL family; Region: MMPL; cl14618 645462007337 Outer membrane efflux protein; Region: OEP; pfam02321 645462007338 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 645462007339 HTH-like domain; Region: HTH_21; pfam13276 645462007340 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 645462007341 Integrase core domain; Region: rve; pfam00665 645462007342 Integrase core domain; Region: rve_2; pfam13333 645462007343 DNA polymerase II large subunit; Validated; Region: PRK04023 645462007344 pyruvate phosphate dikinase; Provisional; Region: PRK09279 645462007345 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 645462007346 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 645462007347 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 645462007348 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 645462007349 HTH domain; Region: HTH_11; pfam08279 645462007350 FOG: CBS domain [General function prediction only]; Region: COG0517 645462007351 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 645462007352 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 645462007353 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 645462007354 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; pfam03829 645462007355 Glucitol operon activator protein (GutM); Region: GutM; pfam06923 645462007356 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 645462007357 HTH domain; Region: HTH_11; pfam08279 645462007358 Mga helix-turn-helix domain; Region: Mga; pfam05043 645462007359 PRD domain; Region: PRD; pfam00874 645462007360 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 645462007361 active site 645462007362 P-loop; other site 645462007363 phosphorylation site [posttranslational modification] 645462007364 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 645462007365 active site 645462007366 phosphorylation site [posttranslational modification] 645462007367 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 645462007368 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 645462007369 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 645462007370 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; pfam03608 645462007371 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 645462007372 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 645462007373 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 645462007374 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 645462007375 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 645462007376 active site 645462007377 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 645462007378 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 645462007379 metal binding site [ion binding]; metal-binding site 645462007380 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 645462007381 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 645462007382 putative substrate translocation pore; other site 645462007383 Major Facilitator Superfamily; Region: MFS_1; pfam07690 645462007384 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 645462007385 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 645462007386 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462007387 homodimer interface [polypeptide binding]; other site 645462007388 catalytic residue [active] 645462007389 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 645462007390 butyrate kinase; Provisional; Region: PRK03011 645462007391 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 645462007392 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 645462007393 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 645462007394 TPP-binding site [chemical binding]; other site 645462007395 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 645462007396 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 645462007397 dimer interface [polypeptide binding]; other site 645462007398 PYR/PP interface [polypeptide binding]; other site 645462007399 TPP binding site [chemical binding]; other site 645462007400 substrate binding site [chemical binding]; other site 645462007401 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 645462007402 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 645462007403 Transcriptional regulator [Transcription]; Region: IclR; COG1414 645462007404 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 645462007405 putative DNA binding site [nucleotide binding]; other site 645462007406 putative Zn2+ binding site [ion binding]; other site 645462007407 Bacterial transcriptional regulator; Region: IclR; pfam01614 645462007408 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 645462007409 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 645462007410 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 645462007411 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 645462007412 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 645462007413 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 645462007414 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 645462007415 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 645462007416 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 645462007417 dimer interface [polypeptide binding]; other site 645462007418 motif 1; other site 645462007419 active site 645462007420 motif 2; other site 645462007421 motif 3; other site 645462007422 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 645462007423 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 645462007424 Recombination protein O N terminal; Region: RecO_N; pfam11967 645462007425 Recombination protein O C terminal; Region: RecO_C; pfam02565 645462007426 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 645462007427 MgtE intracellular N domain; Region: MgtE_N; pfam03448 645462007428 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 645462007429 Divalent cation transporter; Region: MgtE; cl00786 645462007430 GTPase Era; Reviewed; Region: era; PRK00089 645462007431 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 645462007432 G1 box; other site 645462007433 GTP/Mg2+ binding site [chemical binding]; other site 645462007434 Switch I region; other site 645462007435 G2 box; other site 645462007436 Switch II region; other site 645462007437 G3 box; other site 645462007438 G4 box; other site 645462007439 G5 box; other site 645462007440 KH domain; Region: KH_2; pfam07650 645462007441 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 645462007442 active site 645462007443 catalytic motif [active] 645462007444 Zn binding site [ion binding]; other site 645462007445 Integral membrane undecaprenol kinase domain co-occurring with type 2 phosphatidic acid phosphatase-like domains; Region: UDPK_IM_PAP2_like; cd14266 645462007446 trimer interface [polypeptide binding]; other site 645462007447 putative active site [active] 645462007448 Zn binding site [ion binding]; other site 645462007449 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 645462007450 active site 645462007451 metal-binding heat shock protein; Provisional; Region: PRK00016 645462007452 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 645462007453 PhoH-like protein; Region: PhoH; pfam02562 645462007454 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 645462007455 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 645462007456 YabP family; Region: YabP; pfam07873 645462007457 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 645462007458 30S subunit binding site; other site 645462007459 TspO/MBR family; Region: TspO_MBR; pfam03073 645462007460 Yqey-like protein; Region: YqeY; pfam09424 645462007461 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 645462007462 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 645462007463 nucleotide binding site/active site [active] 645462007464 HIT family signature motif; other site 645462007465 catalytic residue [active] 645462007466 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 645462007467 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 645462007468 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 645462007469 FeS/SAM binding site; other site 645462007470 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 645462007471 RNA methyltransferase, RsmE family; Region: TIGR00046 645462007472 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 645462007473 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 645462007474 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 645462007475 S-adenosylmethionine binding site [chemical binding]; other site 645462007476 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 645462007477 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 645462007478 CRISPR/Cas system-associated protein Cas3; Region: Cas3_I; cd09639 645462007479 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 645462007480 ATP binding site [chemical binding]; other site 645462007481 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-B; cd09658 645462007482 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cd09687 645462007483 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 645462007484 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 645462007485 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 645462007486 Walker A/P-loop; other site 645462007487 ATP binding site [chemical binding]; other site 645462007488 Q-loop/lid; other site 645462007489 ABC transporter signature motif; other site 645462007490 Walker B; other site 645462007491 D-loop; other site 645462007492 H-loop/switch region; other site 645462007493 TOBE domain; Region: TOBE_2; pfam08402 645462007494 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 645462007495 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 645462007496 Major Facilitator Superfamily; Region: MFS_1; pfam07690 645462007497 putative substrate translocation pore; other site 645462007498 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 645462007499 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 645462007500 nucleotide binding site [chemical binding]; other site 645462007501 chaperone protein DnaJ; Provisional; Region: PRK10767 645462007502 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 645462007503 HSP70 interaction site [polypeptide binding]; other site 645462007504 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 645462007505 substrate binding site [polypeptide binding]; other site 645462007506 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 645462007507 Zn binding sites [ion binding]; other site 645462007508 dimer interface [polypeptide binding]; other site 645462007509 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 645462007510 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 645462007511 nucleotide binding site [chemical binding]; other site 645462007512 NEF interaction site [polypeptide binding]; other site 645462007513 SBD interface [polypeptide binding]; other site 645462007514 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 645462007515 GrpE; Region: GrpE; pfam01025 645462007516 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 645462007517 dimer interface [polypeptide binding]; other site 645462007518 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 645462007519 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 645462007520 HrcA protein C terminal domain; Region: HrcA; pfam01628 645462007521 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 645462007522 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 645462007523 FeS/SAM binding site; other site 645462007524 HemN C-terminal domain; Region: HemN_C; pfam06969 645462007525 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 645462007526 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 645462007527 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 645462007528 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 645462007529 active site 645462007530 NTP binding site [chemical binding]; other site 645462007531 metal binding triad [ion binding]; metal-binding site 645462007532 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 645462007533 HD domain; Region: HD; pfam01966 645462007534 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 645462007535 GTP-binding protein LepA; Provisional; Region: PRK05433 645462007536 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 645462007537 G1 box; other site 645462007538 putative GEF interaction site [polypeptide binding]; other site 645462007539 GTP/Mg2+ binding site [chemical binding]; other site 645462007540 Switch I region; other site 645462007541 G2 box; other site 645462007542 G3 box; other site 645462007543 Switch II region; other site 645462007544 G4 box; other site 645462007545 G5 box; other site 645462007546 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 645462007547 Elongation Factor G, domain II; Region: EFG_II; pfam14492 645462007548 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 645462007549 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 645462007550 stage II sporulation protein P; Region: spore_II_P; TIGR02867 645462007551 germination protease; Provisional; Region: PRK12362 645462007552 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 645462007553 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 645462007554 dimerization interface [polypeptide binding]; other site 645462007555 putative DNA binding site [nucleotide binding]; other site 645462007556 putative Zn2+ binding site [ion binding]; other site 645462007557 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 645462007558 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 645462007559 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 645462007560 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 645462007561 Competence protein; Region: Competence; pfam03772 645462007562 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 645462007563 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 645462007564 Sterol carrier protein domain; Region: SCP2_2; pfam13530 645462007565 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 645462007566 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 645462007567 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 645462007568 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 645462007569 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 645462007570 putative ATP binding site [chemical binding]; other site 645462007571 putative substrate interface [chemical binding]; other site 645462007572 Domain of unknown function (DUF348); Region: DUF348; pfam03990 645462007573 G5 domain; Region: G5; pfam07501 645462007574 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 645462007575 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 645462007576 ligand binding site [chemical binding]; other site 645462007577 active site 645462007578 UGI interface [polypeptide binding]; other site 645462007579 catalytic site [active] 645462007580 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 645462007581 trimer interface [polypeptide binding]; other site 645462007582 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 645462007583 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 645462007584 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 645462007585 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462007586 homodimer interface [polypeptide binding]; other site 645462007587 catalytic residue [active] 645462007588 aminopeptidase; Provisional; Region: PRK09795 645462007589 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 645462007590 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 645462007591 active site 645462007592 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 645462007593 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 645462007594 active site 645462007595 P-loop; other site 645462007596 phosphorylation site [posttranslational modification] 645462007597 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 645462007598 active site 645462007599 phosphorylation site [posttranslational modification] 645462007600 putative frv operon regulatory protein; Provisional; Region: PRK09863 645462007601 HTH domain; Region: HTH_11; pfam08279 645462007602 Mga helix-turn-helix domain; Region: Mga; pfam05043 645462007603 PRD domain; Region: PRD; pfam00874 645462007604 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 645462007605 active site 645462007606 P-loop; other site 645462007607 phosphorylation site [posttranslational modification] 645462007608 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 645462007609 active site 645462007610 phosphorylation site [posttranslational modification] 645462007611 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 645462007612 dipeptidase, putative; Region: dipeptidaselike; TIGR01887 645462007613 active site 645462007614 metal binding site [ion binding]; metal-binding site 645462007615 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 645462007616 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl19057 645462007617 PAS domain S-box; Region: sensory_box; TIGR00229 645462007618 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 645462007619 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 645462007620 dimer interface [polypeptide binding]; other site 645462007621 phosphorylation site [posttranslational modification] 645462007622 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 645462007623 ATP binding site [chemical binding]; other site 645462007624 Mg2+ binding site [ion binding]; other site 645462007625 G-X-G motif; other site 645462007626 Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]; Region: SelB; COG3276 645462007627 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 645462007628 G1 box; other site 645462007629 putative GEF interaction site [polypeptide binding]; other site 645462007630 GTP/Mg2+ binding site [chemical binding]; other site 645462007631 Switch I region; other site 645462007632 G2 box; other site 645462007633 G3 box; other site 645462007634 Switch II region; other site 645462007635 G4 box; other site 645462007636 G5 box; other site 645462007637 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 645462007638 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 645462007639 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 645462007640 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 645462007641 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 645462007642 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 645462007643 L-seryl-tRNA selenium transferase; Region: SelA; pfam03841 645462007644 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 645462007645 catalytic residue [active] 645462007646 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 645462007647 dimerization interface [polypeptide binding]; other site 645462007648 putative ATP binding site [chemical binding]; other site 645462007649 SLBB domain; Region: SLBB; pfam10531 645462007650 comEA protein; Region: comE; TIGR01259 645462007651 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 645462007652 D-alanyl-D-alanine carboxypeptidase; Provisional; Region: dacD; PRK11397 645462007653 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl19191 645462007654 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 645462007655 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 645462007656 argininosuccinate lyase; Provisional; Region: PRK00855 645462007657 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 645462007658 active sites [active] 645462007659 tetramer interface [polypeptide binding]; other site 645462007660 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 645462007661 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 645462007662 active site 645462007663 motif I; other site 645462007664 motif II; other site 645462007665 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 645462007666 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 645462007667 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 645462007668 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 645462007669 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462007670 homodimer interface [polypeptide binding]; other site 645462007671 catalytic residue [active] 645462007672 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 645462007673 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 645462007674 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 645462007675 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 645462007676 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 645462007677 motif II; other site 645462007678 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 645462007679 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 645462007680 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 645462007681 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 645462007682 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 645462007683 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 645462007684 Major Facilitator Superfamily; Region: MFS_1; pfam07690 645462007685 putative substrate translocation pore; other site 645462007686 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 645462007687 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 645462007688 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 645462007689 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 645462007690 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 645462007691 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 645462007692 NAD(P) binding site [chemical binding]; other site 645462007693 LDH/MDH dimer interface [polypeptide binding]; other site 645462007694 substrate binding site [chemical binding]; other site 645462007695 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 645462007696 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 645462007697 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 645462007698 active site turn [active] 645462007699 phosphorylation site [posttranslational modification] 645462007700 transcriptional antiterminator BglG; Provisional; Region: PRK09772 645462007701 CAT RNA binding domain; Region: CAT_RBD; smart01061 645462007702 PRD domain; Region: PRD; pfam00874 645462007703 PRD domain; Region: PRD; pfam00874 645462007704 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 645462007705 HPr interaction site; other site 645462007706 glycerol kinase (GK) interaction site [polypeptide binding]; other site 645462007707 active site 645462007708 phosphorylation site [posttranslational modification] 645462007709 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 645462007710 homotrimer interaction site [polypeptide binding]; other site 645462007711 putative active site [active] 645462007712 threonine dehydratase; Provisional; Region: PRK08198 645462007713 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 645462007714 tetramer interface [polypeptide binding]; other site 645462007715 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462007716 catalytic residue [active] 645462007717 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 645462007718 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 645462007719 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 645462007720 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462007721 homodimer interface [polypeptide binding]; other site 645462007722 catalytic residue [active] 645462007723 cytoplasmic asparaginase I; Provisional; Region: ansA; PRK09461 645462007724 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 645462007725 active site 645462007726 homotetramer interface [polypeptide binding]; other site 645462007727 homodimer interface [polypeptide binding]; other site 645462007728 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl19158 645462007729 VanZ like family; Region: VanZ; pfam04892 645462007730 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 645462007731 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 645462007732 active site 645462007733 HIGH motif; other site 645462007734 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 645462007735 KMSKS motif; other site 645462007736 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 645462007737 tRNA binding surface [nucleotide binding]; other site 645462007738 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 645462007739 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 645462007740 Zn2+ binding site [ion binding]; other site 645462007741 Mg2+ binding site [ion binding]; other site 645462007742 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 645462007743 active site 645462007744 (T/H)XGH motif; other site 645462007745 recombination regulator RecX; Reviewed; Region: recX; PRK00117 645462007746 glycogen branching enzyme; Provisional; Region: PRK12313 645462007747 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 645462007748 Alpha amylase catalytic domain found in bacterial and eukaryotic branching enzymes; Region: AmyAc_bac_euk_BE; cd11321 645462007749 active site 645462007750 catalytic site [active] 645462007751 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 645462007752 Helix-turn-helix domain; Region: HTH_18; pfam12833 645462007753 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 645462007754 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 645462007755 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 645462007756 catalytic residue [active] 645462007757 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 645462007758 FtsX-like permease family; Region: FtsX; pfam02687 645462007759 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 645462007760 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 645462007761 FtsX-like permease family; Region: FtsX; pfam02687 645462007762 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 645462007763 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 645462007764 Walker A/P-loop; other site 645462007765 ATP binding site [chemical binding]; other site 645462007766 Q-loop/lid; other site 645462007767 ABC transporter signature motif; other site 645462007768 Walker B; other site 645462007769 D-loop; other site 645462007770 H-loop/switch region; other site 645462007771 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462007772 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 645462007773 dimer interface [polypeptide binding]; other site 645462007774 phosphorylation site [posttranslational modification] 645462007775 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 645462007776 ATP binding site [chemical binding]; other site 645462007777 Mg2+ binding site [ion binding]; other site 645462007778 G-X-G motif; other site 645462007779 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462007780 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 645462007781 active site 645462007782 phosphorylation site [posttranslational modification] 645462007783 intermolecular recognition site; other site 645462007784 dimerization interface [polypeptide binding]; other site 645462007785 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 645462007786 DNA binding site [nucleotide binding] 645462007787 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 645462007788 Staphylococcus aureus SA0022 and related proteins, N-terminal metallophosphatase domain; Region: MPP_SA0022_N; cd07408 645462007789 putative active site [active] 645462007790 putative metal binding site [ion binding]; other site 645462007791 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 645462007792 ribonuclease Z; Reviewed; Region: PRK00055 645462007793 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 645462007794 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 645462007795 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 645462007796 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 645462007797 DHHW protein; Region: DHHW; pfam14286 645462007798 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 645462007799 Phosphate transport (Pho88); Region: Pho88; cl02110 645462007800 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 645462007801 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 645462007802 DXD motif; other site 645462007803 PilZ domain; Region: PilZ; pfam07238 645462007804 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 645462007805 Domain of unknown function (DUF4091); Region: DUF4091; pfam13320 645462007806 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 645462007807 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 645462007808 dimer interface [polypeptide binding]; other site 645462007809 conserved gate region; other site 645462007810 putative PBP binding loops; other site 645462007811 ABC-ATPase subunit interface; other site 645462007812 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 645462007813 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 645462007814 dimer interface [polypeptide binding]; other site 645462007815 conserved gate region; other site 645462007816 putative PBP binding loops; other site 645462007817 ABC-ATPase subunit interface; other site 645462007818 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 645462007819 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 645462007820 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 645462007821 putative active site [active] 645462007822 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 645462007823 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 645462007824 active site 645462007825 P-loop; other site 645462007826 phosphorylation site [posttranslational modification] 645462007827 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 645462007828 HTH domain; Region: HTH_11; pfam08279 645462007829 Mga helix-turn-helix domain; Region: Mga; pfam05043 645462007830 PRD domain; Region: PRD; pfam00874 645462007831 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 645462007832 active site 645462007833 P-loop; other site 645462007834 phosphorylation site [posttranslational modification] 645462007835 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 645462007836 active site 645462007837 phosphorylation site [posttranslational modification] 645462007838 hypothetical protein; Region: PHA00671 645462007839 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 645462007840 active site 645462007841 (T/H)XGH motif; other site 645462007842 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 645462007843 S-adenosylmethionine binding site [chemical binding]; other site 645462007844 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 645462007845 Y-family of DNA polymerases; Region: PolY; cl12025 645462007846 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 645462007847 generic binding surface II; other site 645462007848 ssDNA binding site; other site 645462007849 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 645462007850 ATP binding site [chemical binding]; other site 645462007851 putative Mg++ binding site [ion binding]; other site 645462007852 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 645462007853 nucleotide binding region [chemical binding]; other site 645462007854 ATP-binding site [chemical binding]; other site 645462007855 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 645462007856 DAK2 domain; Region: Dak2; pfam02734 645462007857 Dihydroxyacetone kinase family; Region: Dak1_2; pfam13684 645462007858 Asp23 family; Region: Asp23; pfam03780 645462007859 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 645462007860 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 645462007861 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 645462007862 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 645462007863 DNA binding residues [nucleotide binding] 645462007864 dimer interface [polypeptide binding]; other site 645462007865 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 645462007866 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 645462007867 HTH domain; Region: HTH_11; pfam08279 645462007868 Mga helix-turn-helix domain; Region: Mga; pfam05043 645462007869 PRD domain; Region: PRD; pfam00874 645462007870 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 645462007871 active site 645462007872 P-loop; other site 645462007873 phosphorylation site [posttranslational modification] 645462007874 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 645462007875 active site 645462007876 phosphorylation site [posttranslational modification] 645462007877 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 645462007878 active site 645462007879 phosphorylation site [posttranslational modification] 645462007880 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 645462007881 active site 645462007882 P-loop; other site 645462007883 phosphorylation site [posttranslational modification] 645462007884 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 645462007885 alpha-mannosidase; Provisional; Region: PRK09819 645462007886 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 645462007887 active site 645462007888 metal binding site [ion binding]; metal-binding site 645462007889 catalytic site [active] 645462007890 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 645462007891 Glycosyl hydrolases family 38 C-terminal domain; Region: Glyco_hydro_38C; pfam07748 645462007892 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462007893 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 645462007894 dimer interface [polypeptide binding]; other site 645462007895 phosphorylation site [posttranslational modification] 645462007896 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 645462007897 ATP binding site [chemical binding]; other site 645462007898 Mg2+ binding site [ion binding]; other site 645462007899 G-X-G motif; other site 645462007900 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462007901 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 645462007902 active site 645462007903 phosphorylation site [posttranslational modification] 645462007904 intermolecular recognition site; other site 645462007905 dimerization interface [polypeptide binding]; other site 645462007906 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 645462007907 DNA binding site [nucleotide binding] 645462007908 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 645462007909 FMN binding site [chemical binding]; other site 645462007910 dimer interface [polypeptide binding]; other site 645462007911 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 645462007912 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 645462007913 Thiamine pyrophosphokinase; Region: TPK; cd07995 645462007914 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 645462007915 active site 645462007916 dimerization interface [polypeptide binding]; other site 645462007917 thiamine binding site [chemical binding]; other site 645462007918 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 645462007919 substrate binding site [chemical binding]; other site 645462007920 hexamer interface [polypeptide binding]; other site 645462007921 metal binding site [ion binding]; metal-binding site 645462007922 GTPase RsgA; Reviewed; Region: PRK00098 645462007923 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 645462007924 RNA binding site [nucleotide binding]; other site 645462007925 homodimer interface [polypeptide binding]; other site 645462007926 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 645462007927 GTPase/Zn-binding domain interface [polypeptide binding]; other site 645462007928 GTP/Mg2+ binding site [chemical binding]; other site 645462007929 G4 box; other site 645462007930 G5 box; other site 645462007931 G1 box; other site 645462007932 Switch I region; other site 645462007933 G2 box; other site 645462007934 G3 box; other site 645462007935 Switch II region; other site 645462007936 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 645462007937 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 645462007938 NAD(P) binding site [chemical binding]; other site 645462007939 active site 645462007940 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 645462007941 Catalytic domain of Protein Kinases; Region: PKc; cd00180 645462007942 active site 645462007943 ATP binding site [chemical binding]; other site 645462007944 substrate binding site [chemical binding]; other site 645462007945 activation loop (A-loop); other site 645462007946 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 645462007947 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 645462007948 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 645462007949 active site 645462007950 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 645462007951 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 645462007952 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 645462007953 FeS/SAM binding site; other site 645462007954 16S rRNA methyltransferase B; Provisional; Region: PRK14902 645462007955 NusB family; Region: NusB; pfam01029 645462007956 putative RNA binding site [nucleotide binding]; other site 645462007957 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 645462007958 S-adenosylmethionine binding site [chemical binding]; other site 645462007959 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 645462007960 Protein of unknown function DUF116; Region: DUF116; pfam01976 645462007961 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 645462007962 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 645462007963 putative active site [active] 645462007964 substrate binding site [chemical binding]; other site 645462007965 putative cosubstrate binding site; other site 645462007966 catalytic site [active] 645462007967 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 645462007968 substrate binding site [chemical binding]; other site 645462007969 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 645462007970 active site 645462007971 catalytic residues [active] 645462007972 metal binding site [ion binding]; metal-binding site 645462007973 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 645462007974 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 645462007975 ATP binding site [chemical binding]; other site 645462007976 putative Mg++ binding site [ion binding]; other site 645462007977 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 645462007978 nucleotide binding region [chemical binding]; other site 645462007979 ATP-binding site [chemical binding]; other site 645462007980 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 645462007981 phosphopantothenoylcysteine decarboxylase; Validated; Region: PRK07313 645462007982 DNA / pantothenate metabolizm flavoprotein; Region: DFP; pfam04127 645462007983 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 645462007984 Guanylate kinase; Region: Guanylate_kin; pfam00625 645462007985 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 645462007986 catalytic site [active] 645462007987 G-X2-G-X-G-K; other site 645462007988 hypothetical protein; Provisional; Region: PRK11820 645462007989 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 645462007990 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 645462007991 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 645462007992 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 645462007993 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 645462007994 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 645462007995 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 645462007996 tetramer interface [polypeptide binding]; other site 645462007997 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462007998 catalytic residue [active] 645462007999 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 645462008000 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 645462008001 Domain of unknown function (DUF814); Region: DUF814; pfam05670 645462008002 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 645462008003 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 645462008004 ABC transporter; Region: ABC_tran_2; pfam12848 645462008005 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 645462008006 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 645462008007 Sulfate transporter family; Region: Sulfate_transp; cl19250 645462008008 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 645462008009 active site 645462008010 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 645462008011 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 645462008012 RNA binding surface [nucleotide binding]; other site 645462008013 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 645462008014 active site 645462008015 lipoprotein signal peptidase; Provisional; Region: PRK14768 645462008016 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 645462008017 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 645462008018 NodB motif; other site 645462008019 active site 645462008020 catalytic site [active] 645462008021 metal binding site [ion binding]; metal-binding site 645462008022 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 645462008023 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 645462008024 Carbon starvation protein CstA; Region: CstA; pfam02554 645462008025 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 645462008026 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 645462008027 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 645462008028 active site 645462008029 phosphorylation site [posttranslational modification] 645462008030 intermolecular recognition site; other site 645462008031 dimerization interface [polypeptide binding]; other site 645462008032 LytTr DNA-binding domain; Region: LytTR; smart00850 645462008033 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 645462008034 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 645462008035 Histidine kinase; Region: His_kinase; pfam06580 645462008036 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 645462008037 ATP binding site [chemical binding]; other site 645462008038 Mg2+ binding site [ion binding]; other site 645462008039 G-X-G motif; other site 645462008040 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 645462008041 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 645462008042 LytTr DNA-binding domain; Region: LytTR; smart00850 645462008043 VIP2; A family of actin-ADP-ribosylating toxin. A member of the Bacillus-prodiced vegetative insecticidal proteins (VIPs) possesses high specificity against the major insect pest, corn rootworms, and belongs to a classs of binary toxins and regulators of...; Region: VIP2; cl00173 645462008044 VIP2; A family of actin-ADP-ribosylating toxin. A member of the Bacillus-prodiced vegetative insecticidal proteins (VIPs) possesses high specificity against the major insect pest, corn rootworms, and belongs to a classs of binary toxins and regulators of...; Region: VIP2; cd00233 645462008045 active site 645462008046 conformational flexibility of ligand binding pocket; other site 645462008047 ADP-ribosylating toxin turn-turn motif; other site 645462008048 domain in bacterial beta-glucosidases other glycosidases, glycosyltransferases, proteases, amidases, yeast adhesins, and bacterial toxins; Region: PA14; smart00758 645462008049 Clostridial binary toxin B/anthrax toxin PA; Region: Binary_toxB; pfam03495 645462008050 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK00927 645462008051 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 645462008052 active site 645462008053 HIGH motif; other site 645462008054 dimer interface [polypeptide binding]; other site 645462008055 KMSKS motif; other site 645462008056 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 645462008057 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 645462008058 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 645462008059 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 645462008060 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 645462008061 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 645462008062 active site 645462008063 EDD domain protein, DegV family; Region: DegV; TIGR00762 645462008064 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 645462008065 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 645462008066 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 645462008067 Uncharacterized conserved protein [Function unknown]; Region: COG1284 645462008068 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 645462008069 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 645462008070 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 645462008071 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 645462008072 Probable transposase; Region: OrfB_IS605; pfam01385 645462008073 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 645462008074 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 645462008075 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 645462008076 active site 645462008077 HIGH motif; other site 645462008078 nucleotide binding site [chemical binding]; other site 645462008079 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 645462008080 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 645462008081 active site 645462008082 KMSKS motif; other site 645462008083 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 645462008084 tRNA binding surface [nucleotide binding]; other site 645462008085 anticodon binding site; other site 645462008086 DivIVA protein; Region: DivIVA; pfam05103 645462008087 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 645462008088 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 645462008089 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 645462008090 RNA binding surface [nucleotide binding]; other site 645462008091 YGGT family; Region: YGGT; pfam02325 645462008092 Protein of unknown function (DUF552); Region: DUF552; cl00775 645462008093 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 645462008094 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 645462008095 catalytic residue [active] 645462008096 HlyD family secretion protein; Region: HlyD_2; pfam12700 645462008097 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl19164 645462008098 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 645462008099 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 645462008100 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 645462008101 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 645462008102 Major Facilitator Superfamily; Region: MFS_1; pfam07690 645462008103 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 645462008104 putative substrate translocation pore; other site 645462008105 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 645462008106 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 645462008107 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 645462008108 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 645462008109 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 645462008110 active site 645462008111 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 645462008112 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 645462008113 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 645462008114 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 645462008115 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 645462008116 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 645462008117 GTP-binding protein Der; Reviewed; Region: PRK00093 645462008118 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 645462008119 G1 box; other site 645462008120 GTP/Mg2+ binding site [chemical binding]; other site 645462008121 Switch I region; other site 645462008122 G2 box; other site 645462008123 Switch II region; other site 645462008124 G3 box; other site 645462008125 G4 box; other site 645462008126 G5 box; other site 645462008127 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 645462008128 G1 box; other site 645462008129 GTP/Mg2+ binding site [chemical binding]; other site 645462008130 Switch I region; other site 645462008131 G2 box; other site 645462008132 G3 box; other site 645462008133 Switch II region; other site 645462008134 G4 box; other site 645462008135 G5 box; other site 645462008136 KH-domain-like of EngA bacterial GTPase enzymes, C-terminal; Region: KH_dom-like; pfam14714 645462008137 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 645462008138 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 645462008139 Protein of unknown function (DUF512); Region: DUF512; pfam04459 645462008140 YIEGIA protein; Region: YIEGIA; pfam14045 645462008141 YIEGIA protein; Region: YIEGIA; pfam14045 645462008142 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 645462008143 dimerization interface [polypeptide binding]; other site 645462008144 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 645462008145 PAS domain; Region: PAS; smart00091 645462008146 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 645462008147 dimer interface [polypeptide binding]; other site 645462008148 phosphorylation site [posttranslational modification] 645462008149 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 645462008150 ATP binding site [chemical binding]; other site 645462008151 Mg2+ binding site [ion binding]; other site 645462008152 G-X-G motif; other site 645462008153 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462008154 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 645462008155 active site 645462008156 phosphorylation site [posttranslational modification] 645462008157 intermolecular recognition site; other site 645462008158 dimerization interface [polypeptide binding]; other site 645462008159 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 645462008160 DNA binding site [nucleotide binding] 645462008161 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 645462008162 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 645462008163 ATP cone domain; Region: ATP-cone; pfam03477 645462008164 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]; Region: COG1873; cl17889 645462008165 sporulation sigma factor SigG; Reviewed; Region: PRK08215 645462008166 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 645462008167 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 645462008168 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 645462008169 DNA binding residues [nucleotide binding] 645462008170 sporulation sigma factor SigE; Reviewed; Region: PRK08301 645462008171 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 645462008172 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 645462008173 DNA binding residues [nucleotide binding] 645462008174 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 645462008175 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 645462008176 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 645462008177 cell division protein FtsZ; Validated; Region: PRK09330 645462008178 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 645462008179 nucleotide binding site [chemical binding]; other site 645462008180 SulA interaction site; other site 645462008181 Protein of unknown function (DUF1290); Region: DUF1290; pfam06947 645462008182 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 645462008183 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 645462008184 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 645462008185 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 645462008186 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 645462008187 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 645462008188 active site 645462008189 homodimer interface [polypeptide binding]; other site 645462008190 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 645462008191 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 645462008192 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 645462008193 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 645462008194 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 645462008195 Mg++ binding site [ion binding]; other site 645462008196 putative catalytic motif [active] 645462008197 putative substrate binding site [chemical binding]; other site 645462008198 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 645462008199 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 645462008200 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 645462008201 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 645462008202 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 645462008203 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 645462008204 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 645462008205 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 645462008206 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 645462008207 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 645462008208 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 645462008209 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 645462008210 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 645462008211 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 645462008212 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 645462008213 GTP-binding protein YchF; Reviewed; Region: PRK09601 645462008214 YchF GTPase; Region: YchF; cd01900 645462008215 G1 box; other site 645462008216 GTP/Mg2+ binding site [chemical binding]; other site 645462008217 Switch I region; other site 645462008218 G2 box; other site 645462008219 Switch II region; other site 645462008220 G3 box; other site 645462008221 G4 box; other site 645462008222 G5 box; other site 645462008223 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 645462008224 Cache domain; Region: Cache_1; pfam02743 645462008225 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 645462008226 metal binding site [ion binding]; metal-binding site 645462008227 active site 645462008228 I-site; other site 645462008229 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 645462008230 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 645462008231 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 645462008232 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 645462008233 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 645462008234 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 645462008235 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 645462008236 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 645462008237 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 645462008238 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 645462008239 HPr interaction site; other site 645462008240 glycerol kinase (GK) interaction site [polypeptide binding]; other site 645462008241 active site 645462008242 phosphorylation site [posttranslational modification] 645462008243 transcriptional antiterminator BglG; Provisional; Region: PRK09772 645462008244 CAT RNA binding domain; Region: CAT_RBD; smart01061 645462008245 PRD domain; Region: PRD; pfam00874 645462008246 PRD domain; Region: PRD; pfam00874 645462008247 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 645462008248 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 645462008249 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 645462008250 Walker A/P-loop; other site 645462008251 ATP binding site [chemical binding]; other site 645462008252 Q-loop/lid; other site 645462008253 ABC transporter signature motif; other site 645462008254 Walker B; other site 645462008255 D-loop; other site 645462008256 H-loop/switch region; other site 645462008257 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 645462008258 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 645462008259 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 645462008260 Walker A/P-loop; other site 645462008261 ATP binding site [chemical binding]; other site 645462008262 Q-loop/lid; other site 645462008263 ABC transporter signature motif; other site 645462008264 Walker B; other site 645462008265 D-loop; other site 645462008266 H-loop/switch region; other site 645462008267 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 645462008268 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 645462008269 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 645462008270 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 645462008271 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 645462008272 dimer interface [polypeptide binding]; other site 645462008273 conserved gate region; other site 645462008274 putative PBP binding loops; other site 645462008275 ABC-ATPase subunit interface; other site 645462008276 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 645462008277 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 645462008278 dimer interface [polypeptide binding]; other site 645462008279 conserved gate region; other site 645462008280 putative PBP binding loops; other site 645462008281 ABC-ATPase subunit interface; other site 645462008282 Transcriptional regulator [Transcription]; Region: LysR; COG0583 645462008283 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 645462008284 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 645462008285 dimerization interface [polypeptide binding]; other site 645462008286 putative acyltransferase; Provisional; Region: PRK05790 645462008287 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 645462008288 dimer interface [polypeptide binding]; other site 645462008289 active site 645462008290 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 645462008291 Coenzyme A transferase; Region: CoA_trans; cl17247 645462008292 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 645462008293 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 645462008294 NAD(P) binding site [chemical binding]; other site 645462008295 active site 645462008296 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 645462008297 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 645462008298 Rad52/22 family double-strand break repair protein; Region: Rad52_Rad22; cl01936 645462008299 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 645462008300 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 645462008301 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 645462008302 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 645462008303 dimer interface [polypeptide binding]; other site 645462008304 PYR/PP interface [polypeptide binding]; other site 645462008305 TPP binding site [chemical binding]; other site 645462008306 substrate binding site [chemical binding]; other site 645462008307 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 645462008308 Domain of unknown function; Region: EKR; pfam10371 645462008309 4Fe-4S binding domain; Region: Fer4_6; pfam12837 645462008310 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 645462008311 TPP-binding site [chemical binding]; other site 645462008312 dimer interface [polypeptide binding]; other site 645462008313 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 645462008314 Propanediol utilisation protein PduL; Region: PduL; pfam06130 645462008315 Propanediol utilisation protein PduL; Region: PduL; pfam06130 645462008316 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 645462008317 GAF domain; Region: GAF_2; pfam13185 645462008318 GAF domain; Region: GAF_3; pfam13492 645462008319 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 645462008320 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 645462008321 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 645462008322 HI0933-like protein; Region: HI0933_like; pfam03486 645462008323 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 645462008324 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 645462008325 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 645462008326 active site 645462008327 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 645462008328 active site 645462008329 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 645462008330 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 645462008331 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462008332 homodimer interface [polypeptide binding]; other site 645462008333 catalytic residue [active] 645462008334 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 645462008335 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 645462008336 asparagine synthetase AsnA; Provisional; Region: PRK05425 645462008337 motif 1; other site 645462008338 dimer interface [polypeptide binding]; other site 645462008339 active site 645462008340 motif 2; other site 645462008341 motif 3; other site 645462008342 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 645462008343 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 645462008344 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462008345 homodimer interface [polypeptide binding]; other site 645462008346 catalytic residue [active] 645462008347 M20 Peptidase Aminoacylase 1 amhX_like subfamily; Region: M20_Acy1_amhX_like; cd08018 645462008348 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 645462008349 metal binding site [ion binding]; metal-binding site 645462008350 putative dimer interface [polypeptide binding]; other site 645462008351 hypothetical protein; Provisional; Region: PRK10519 645462008352 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 645462008353 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 645462008354 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 645462008355 Walker A motif; other site 645462008356 ATP binding site [chemical binding]; other site 645462008357 Walker B motif; other site 645462008358 arginine finger; other site 645462008359 Protein of unknown function (DUF3798); Region: DUF3798; pfam12683 645462008360 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 645462008361 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 645462008362 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 645462008363 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 645462008364 Sulfate transporter family; Region: Sulfate_transp; cl19250 645462008365 N-ethylammeline chlorohydrolase; Provisional; Region: PRK07228 645462008366 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 645462008367 active site 645462008368 putative substrate binding pocket [chemical binding]; other site 645462008369 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 645462008370 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 645462008371 Major Facilitator Superfamily; Region: MFS_1; pfam07690 645462008372 putative substrate translocation pore; other site 645462008373 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 645462008374 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 645462008375 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 645462008376 shikimate binding site; other site 645462008377 NAD(P) binding site [chemical binding]; other site 645462008378 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 645462008379 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 645462008380 active site 645462008381 FMN binding site [chemical binding]; other site 645462008382 substrate binding site [chemical binding]; other site 645462008383 putative catalytic residue [active] 645462008384 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 645462008385 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 645462008386 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 645462008387 Transcriptional regulator [Transcription]; Region: LysR; COG0583 645462008388 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 645462008389 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 645462008390 putative dimerization interface [polypeptide binding]; other site 645462008391 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 645462008392 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 645462008393 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 645462008394 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 645462008395 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 645462008396 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 645462008397 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008398 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008399 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008400 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 645462008401 UDP-glucose 4-epimerase; Region: PLN02240 645462008402 NAD binding site [chemical binding]; other site 645462008403 homodimer interface [polypeptide binding]; other site 645462008404 active site 645462008405 substrate binding site [chemical binding]; other site 645462008406 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 645462008407 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 645462008408 active site 645462008409 tetramer interface; other site 645462008410 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12903 645462008411 Sporulation related domain; Region: SPOR; pfam05036 645462008412 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 645462008413 active site 645462008414 catalytic site [active] 645462008415 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 645462008416 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 645462008417 NodB motif; other site 645462008418 active site 645462008419 catalytic site [active] 645462008420 Cd binding site [ion binding]; other site 645462008421 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 645462008422 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462008423 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 645462008424 dimerization interface [polypeptide binding]; other site 645462008425 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 645462008426 dimer interface [polypeptide binding]; other site 645462008427 phosphorylation site [posttranslational modification] 645462008428 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 645462008429 ATP binding site [chemical binding]; other site 645462008430 Mg2+ binding site [ion binding]; other site 645462008431 G-X-G motif; other site 645462008432 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462008433 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 645462008434 active site 645462008435 phosphorylation site [posttranslational modification] 645462008436 intermolecular recognition site; other site 645462008437 dimerization interface [polypeptide binding]; other site 645462008438 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 645462008439 DNA binding site [nucleotide binding] 645462008440 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 645462008441 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 645462008442 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_3; cd10959 645462008443 NodB motif; other site 645462008444 putative active site [active] 645462008445 putative catalytic site [active] 645462008446 putative Zn binding site [ion binding]; other site 645462008447 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 645462008448 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 645462008449 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl19139 645462008450 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 645462008451 dimer interface [polypeptide binding]; other site 645462008452 active site 645462008453 glycine-pyridoxal phosphate binding site [chemical binding]; other site 645462008454 folate binding site [chemical binding]; other site 645462008455 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 645462008456 Uncharacterized conserved protein [Function unknown]; Region: COG2966 645462008457 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 645462008458 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 645462008459 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 645462008460 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 645462008461 putative homodimer interface [polypeptide binding]; other site 645462008462 putative homotetramer interface [polypeptide binding]; other site 645462008463 putative allosteric switch controlling residues; other site 645462008464 putative metal binding site [ion binding]; other site 645462008465 putative homodimer-homodimer interface [polypeptide binding]; other site 645462008466 PAS domain; Region: PAS; smart00091 645462008467 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 645462008468 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 645462008469 Walker A motif; other site 645462008470 ATP binding site [chemical binding]; other site 645462008471 Walker B motif; other site 645462008472 arginine finger; other site 645462008473 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 645462008474 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 645462008475 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462008476 homodimer interface [polypeptide binding]; other site 645462008477 catalytic residue [active] 645462008478 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 645462008479 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 645462008480 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 645462008481 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008482 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008483 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008484 Bacterial SH3 domain; Region: SH3_3; pfam08239 645462008485 Bacterial SH3 domain; Region: SH3_3; pfam08239 645462008486 Transcriptional regulator [Transcription]; Region: LysR; COG0583 645462008487 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 645462008488 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 645462008489 dimerization interface [polypeptide binding]; other site 645462008490 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_6; cd07584 645462008491 putative active site [active] 645462008492 catalytic triad [active] 645462008493 putative dimer interface [polypeptide binding]; other site 645462008494 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 645462008495 Na binding site [ion binding]; other site 645462008496 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 645462008497 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 645462008498 dimer interface [polypeptide binding]; other site 645462008499 anticodon binding site; other site 645462008500 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 645462008501 homodimer interface [polypeptide binding]; other site 645462008502 motif 1; other site 645462008503 active site 645462008504 motif 2; other site 645462008505 GAD domain; Region: GAD; pfam02938 645462008506 motif 3; other site 645462008507 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 645462008508 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 645462008509 dimer interface [polypeptide binding]; other site 645462008510 motif 1; other site 645462008511 active site 645462008512 motif 2; other site 645462008513 motif 3; other site 645462008514 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 645462008515 anticodon binding site; other site 645462008516 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 645462008517 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 645462008518 FeS/SAM binding site; other site 645462008519 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 645462008520 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 645462008521 putative active site [active] 645462008522 dimerization interface [polypeptide binding]; other site 645462008523 putative tRNAtyr binding site [nucleotide binding]; other site 645462008524 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 645462008525 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 645462008526 Zn2+ binding site [ion binding]; other site 645462008527 Mg2+ binding site [ion binding]; other site 645462008528 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 645462008529 synthetase active site [active] 645462008530 NTP binding site [chemical binding]; other site 645462008531 metal binding site [ion binding]; metal-binding site 645462008532 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 645462008533 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 645462008534 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 645462008535 active site 645462008536 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 645462008537 DHH family; Region: DHH; pfam01368 645462008538 DHHA1 domain; Region: DHHA1; pfam02272 645462008539 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 645462008540 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 645462008541 active site 645462008542 ATP binding site [chemical binding]; other site 645462008543 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 645462008544 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 645462008545 trimer interface [polypeptide binding]; other site 645462008546 putative metal binding site [ion binding]; other site 645462008547 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 645462008548 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 645462008549 FeS/SAM binding site; other site 645462008550 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 645462008551 Staphylococcal AgrD protein; Region: AgrD; cl05477 645462008552 Accessory gene regulator B; Region: AgrB; pfam04647 645462008553 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 645462008554 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 645462008555 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 645462008556 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 645462008557 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 645462008558 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 645462008559 PEP-utilizing enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 645462008560 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 645462008561 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 645462008562 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 645462008563 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 645462008564 dimerization domain swap beta strand [polypeptide binding]; other site 645462008565 regulatory protein interface [polypeptide binding]; other site 645462008566 active site 645462008567 regulatory phosphorylation site [posttranslational modification]; other site 645462008568 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 645462008569 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 645462008570 active site 645462008571 nucleophile elbow; other site 645462008572 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 645462008573 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 645462008574 S-adenosylmethionine binding site [chemical binding]; other site 645462008575 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 645462008576 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 645462008577 Transcriptional regulator; Region: Rrf2; cl17282 645462008578 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 645462008579 nucleotidyl binding site; other site 645462008580 metal binding site [ion binding]; metal-binding site 645462008581 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 645462008582 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 645462008583 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 645462008584 active site 645462008585 metal binding site [ion binding]; metal-binding site 645462008586 Cis (Z)-Isoprenyl Diphosphate Synthases; Region: Cis_IPPS; cd00475 645462008587 active site 645462008588 dimer interface [polypeptide binding]; other site 645462008589 Domain of unknown function (DUF4358); Region: DUF4358; pfam14270 645462008590 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 645462008591 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 645462008592 active site 645462008593 motif I; other site 645462008594 motif II; other site 645462008595 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 645462008596 Transcriptional regulator [Transcription]; Region: LytR; COG1316 645462008597 Transcriptional regulator [Transcription]; Region: LytR; COG1316 645462008598 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 645462008599 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008600 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008601 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008602 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 645462008603 Bacterial SH3 domain; Region: SH3_3; pfam08239 645462008604 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 645462008605 NlpC/P60 family; Region: NLPC_P60; pfam00877 645462008606 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 645462008607 CoA binding domain; Region: CoA_binding; cl17356 645462008608 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 645462008609 NAD(P) binding site [chemical binding]; other site 645462008610 homodimer interface [polypeptide binding]; other site 645462008611 substrate binding site [chemical binding]; other site 645462008612 active site 645462008613 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 645462008614 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 645462008615 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 645462008616 UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain; Region: UDPG_MGDP_dh_N; pfam03721 645462008617 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 645462008618 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 645462008619 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 645462008620 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 645462008621 active site 645462008622 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 645462008623 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 645462008624 active site 645462008625 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 645462008626 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 645462008627 active site 645462008628 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; cl19502 645462008629 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 645462008630 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 645462008631 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 645462008632 active site 645462008633 Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]; Region: OCH1; COG3774 645462008634 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; cl19952 645462008635 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 645462008636 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 645462008637 Substrate binding site; other site 645462008638 Cupin domain; Region: Cupin_2; cl17218 645462008639 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 645462008640 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 645462008641 active site 645462008642 substrate binding site [chemical binding]; other site 645462008643 metal binding site [ion binding]; metal-binding site 645462008644 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 645462008645 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 645462008646 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008647 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008648 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008649 Bacterial sugar transferase; Region: Bac_transf; pfam02397 645462008650 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008651 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008652 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008653 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 645462008654 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 645462008655 active site 645462008656 metal binding site [ion binding]; metal-binding site 645462008657 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 645462008658 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008659 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008660 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008661 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 645462008662 active site 645462008663 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008664 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008665 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008666 GtrA-like protein; Region: GtrA; pfam04138 645462008667 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008668 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008669 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008670 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 645462008671 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008672 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008673 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008674 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 645462008675 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 645462008676 ATP binding site [chemical binding]; other site 645462008677 putative Mg++ binding site [ion binding]; other site 645462008678 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 645462008679 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 645462008680 nucleotide binding region [chemical binding]; other site 645462008681 ATP-binding site [chemical binding]; other site 645462008682 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 645462008683 Low molecular weight S layer protein N terminal; Region: LMWSLP_N; pfam12211 645462008684 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008685 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008686 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008687 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008688 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008689 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 645462008690 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 645462008691 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008692 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008693 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008694 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 645462008695 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 645462008696 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008697 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008698 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008699 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 645462008700 Interdomain contacts; other site 645462008701 Cytokine receptor motif; other site 645462008702 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 645462008703 Peptidase M60-like family; Region: M60-like; cl19940 645462008704 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 645462008705 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008706 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008707 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008708 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 645462008709 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008710 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008711 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462008712 Protein of unknown function (DUF3792); Region: DUF3792; pfam12670 645462008713 Preprotein translocase subunit; Region: YajC; pfam02699 645462008714 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 645462008715 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 645462008716 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 645462008717 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 645462008718 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 645462008719 Walker A motif; other site 645462008720 ATP binding site [chemical binding]; other site 645462008721 Walker B motif; other site 645462008722 arginine finger; other site 645462008723 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 645462008724 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 645462008725 RuvA N terminal domain; Region: RuvA_N; pfam01330 645462008726 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 645462008727 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 645462008728 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 645462008729 active site 645462008730 putative DNA-binding cleft [nucleotide binding]; other site 645462008731 dimer interface [polypeptide binding]; other site 645462008732 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 645462008733 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 645462008734 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 645462008735 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 645462008736 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 645462008737 GntP family permease; Region: GntP_permease; pfam02447 645462008738 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 645462008739 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 645462008740 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 645462008741 NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase; Region: NAD_binding_11; pfam14833 645462008742 Transcriptional regulators [Transcription]; Region: GntR; COG1802 645462008743 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 645462008744 DNA-binding site [nucleotide binding]; DNA binding site 645462008745 FCD domain; Region: FCD; pfam07729 645462008746 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 645462008747 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 645462008748 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 645462008749 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 645462008750 Walker A/P-loop; other site 645462008751 ATP binding site [chemical binding]; other site 645462008752 Q-loop/lid; other site 645462008753 ABC transporter signature motif; other site 645462008754 Walker B; other site 645462008755 D-loop; other site 645462008756 H-loop/switch region; other site 645462008757 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 645462008758 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 645462008759 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462008760 Walker A/P-loop; other site 645462008761 ATP binding site [chemical binding]; other site 645462008762 Q-loop/lid; other site 645462008763 ABC transporter signature motif; other site 645462008764 Walker B; other site 645462008765 D-loop; other site 645462008766 H-loop/switch region; other site 645462008767 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 645462008768 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 645462008769 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 645462008770 catalytic residue [active] 645462008771 HTH-like domain; Region: HTH_21; pfam13276 645462008772 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 645462008773 Integrase core domain; Region: rve; pfam00665 645462008774 Integrase core domain; Region: rve_2; pfam13333 645462008775 hypothetical protein; Provisional; Region: PRK10519 645462008776 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 645462008777 Nucleoside recognition; Region: Gate; pfam07670 645462008778 glutamate carboxypeptidase; Reviewed; Region: PRK06133 645462008779 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 645462008780 metal binding site [ion binding]; metal-binding site 645462008781 dimer interface [polypeptide binding]; other site 645462008782 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 645462008783 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 645462008784 DNA binding residues [nucleotide binding] 645462008785 dimer interface [polypeptide binding]; other site 645462008786 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 645462008787 Flavodoxin domain; Region: Flavodoxin_3; pfam12641 645462008788 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 645462008789 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 645462008790 Probable transposase; Region: OrfB_IS605; pfam01385 645462008791 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 645462008792 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 645462008793 phosphate binding site [ion binding]; other site 645462008794 Transcriptional regulators [Transcription]; Region: MarR; COG1846 645462008795 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 645462008796 aspartate aminotransferase; Provisional; Region: PRK06836 645462008797 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 645462008798 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462008799 homodimer interface [polypeptide binding]; other site 645462008800 catalytic residue [active] 645462008801 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 645462008802 EamA-like transporter family; Region: EamA; pfam00892 645462008803 EamA-like transporter family; Region: EamA; pfam00892 645462008804 Anthrax toxin lethal factor, N- and C-terminal domain; Region: ATLF; pfam07737 645462008805 PPP4R2; Region: PPP4R2; pfam09184 645462008806 Collagen binding domain; Region: Collagen_bind; pfam05737 645462008807 Collagen binding domain; Region: Collagen_bind; pfam05737 645462008808 Cna protein B-type domain; Region: Cna_B; pfam05738 645462008809 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 645462008810 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 645462008811 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 645462008812 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 645462008813 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 645462008814 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 645462008815 Soluble P-type ATPase [General function prediction only]; Region: COG4087 645462008816 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 645462008817 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 645462008818 dimer interface [polypeptide binding]; other site 645462008819 active site 645462008820 glycine-pyridoxal phosphate binding site [chemical binding]; other site 645462008821 folate binding site [chemical binding]; other site 645462008822 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 645462008823 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 645462008824 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 645462008825 metal binding site [ion binding]; metal-binding site 645462008826 dimer interface [polypeptide binding]; other site 645462008827 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 645462008828 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 645462008829 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 645462008830 active site 645462008831 phosphorylation site [posttranslational modification] 645462008832 intermolecular recognition site; other site 645462008833 dimerization interface [polypeptide binding]; other site 645462008834 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 645462008835 Cupin domain; Region: Cupin_2; pfam07883 645462008836 Histidine kinase; Region: His_kinase; pfam06580 645462008837 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 645462008838 ATP binding site [chemical binding]; other site 645462008839 Mg2+ binding site [ion binding]; other site 645462008840 G-X-G motif; other site 645462008841 seryl-tRNA synthetase; Provisional; Region: PRK05431 645462008842 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 645462008843 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 645462008844 dimer interface [polypeptide binding]; other site 645462008845 active site 645462008846 motif 1; other site 645462008847 motif 2; other site 645462008848 motif 3; other site 645462008849 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 645462008850 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 645462008851 active site 645462008852 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 645462008853 putative active site [active] 645462008854 catalytic triad [active] 645462008855 putative dimer interface [polypeptide binding]; other site 645462008856 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 645462008857 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 645462008858 NADP binding site [chemical binding]; other site 645462008859 dimer interface [polypeptide binding]; other site 645462008860 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 645462008861 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 645462008862 dimerization interface [polypeptide binding]; other site 645462008863 putative DNA binding site [nucleotide binding]; other site 645462008864 putative Zn2+ binding site [ion binding]; other site 645462008865 Rubrerythrin [Energy production and conversion]; Region: COG1592 645462008866 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 645462008867 binuclear metal center [ion binding]; other site 645462008868 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 645462008869 iron binding site [ion binding]; other site 645462008870 Protein of unknown function (DUF4004); Region: DUF4004; pfam13171 645462008871 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 645462008872 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 645462008873 phosphonoacetaldehyde hydrolase; Region: phosphonatase; TIGR01422 645462008874 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 645462008875 motif II; other site 645462008876 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 645462008877 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 645462008878 catalytic residue [active] 645462008879 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 645462008880 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 645462008881 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 645462008882 Phosphopantetheine attachment site; Region: PP-binding; cl09936 645462008883 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 645462008884 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 645462008885 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 645462008886 acyl-activating enzyme (AAE) consensus motif; other site 645462008887 AMP binding site [chemical binding]; other site 645462008888 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 645462008889 DltD central region; Region: DltD_M; pfam04918 645462008890 DltD C-terminal region; Region: DltD_C; pfam04914 645462008891 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 645462008892 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 645462008893 Protein of unknown function (DUF1113); Region: DUF1113; cl19877 645462008894 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 645462008895 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 645462008896 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 645462008897 motif II; other site 645462008898 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 645462008899 Domain of unknown function DUF21; Region: DUF21; pfam01595 645462008900 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 645462008901 Transporter associated domain; Region: CorC_HlyC; smart01091 645462008902 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 645462008903 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 645462008904 active site 645462008905 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 645462008906 active site 645462008907 PAS domain; Region: PAS; smart00091 645462008908 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 645462008909 Walker A motif; other site 645462008910 ATP binding site [chemical binding]; other site 645462008911 Walker B motif; other site 645462008912 arginine finger; other site 645462008913 Putative lysophospholipase; Region: Hydrolase_4; cl19140 645462008914 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 645462008915 Manganese catalase-like protein, ferritin-like diiron-binding domain; Region: Mn_catalase_like; cd07908 645462008916 Ferritin-like domain; Region: Ferritin; pfam00210 645462008917 dinuclear metal binding motif [ion binding]; other site 645462008918 FtsX-like permease family; Region: FtsX; pfam02687 645462008919 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 645462008920 FtsX-like permease family; Region: FtsX; pfam02687 645462008921 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 645462008922 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 645462008923 Walker A/P-loop; other site 645462008924 ATP binding site [chemical binding]; other site 645462008925 Q-loop/lid; other site 645462008926 ABC transporter signature motif; other site 645462008927 Walker B; other site 645462008928 D-loop; other site 645462008929 H-loop/switch region; other site 645462008930 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462008931 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 645462008932 ATP binding site [chemical binding]; other site 645462008933 Mg2+ binding site [ion binding]; other site 645462008934 G-X-G motif; other site 645462008935 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 645462008936 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 645462008937 active site 645462008938 phosphorylation site [posttranslational modification] 645462008939 intermolecular recognition site; other site 645462008940 dimerization interface [polypeptide binding]; other site 645462008941 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 645462008942 DNA binding site [nucleotide binding] 645462008943 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 645462008944 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 645462008945 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 645462008946 FAD dependent oxidoreductase; Region: DAO; pfam01266 645462008947 Propionate catabolism activator; Region: PrpR_N; pfam06506 645462008948 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 645462008949 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 645462008950 putative active site [active] 645462008951 heme pocket [chemical binding]; other site 645462008952 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 645462008953 Walker A motif; other site 645462008954 ATP binding site [chemical binding]; other site 645462008955 Walker B motif; other site 645462008956 arginine finger; other site 645462008957 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 645462008958 2-keto-3-deoxygluconate permease; Provisional; Region: PRK12460 645462008959 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 645462008960 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 645462008961 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 645462008962 nucleotidyl binding site; other site 645462008963 metal binding site [ion binding]; metal-binding site 645462008964 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 645462008965 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 645462008966 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 645462008967 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 645462008968 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 645462008969 Walker A/P-loop; other site 645462008970 ATP binding site [chemical binding]; other site 645462008971 Q-loop/lid; other site 645462008972 ABC transporter signature motif; other site 645462008973 Walker B; other site 645462008974 D-loop; other site 645462008975 H-loop/switch region; other site 645462008976 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 645462008977 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 645462008978 ABC-ATPase subunit interface; other site 645462008979 dimer interface [polypeptide binding]; other site 645462008980 putative PBP binding regions; other site 645462008981 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 645462008982 ABC-ATPase subunit interface; other site 645462008983 dimer interface [polypeptide binding]; other site 645462008984 putative PBP binding regions; other site 645462008985 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 645462008986 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 645462008987 intersubunit interface [polypeptide binding]; other site 645462008988 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 645462008989 methionine cluster; other site 645462008990 active site 645462008991 phosphorylation site [posttranslational modification] 645462008992 metal binding site [ion binding]; metal-binding site 645462008993 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 645462008994 putative active site [active] 645462008995 YdjC motif; other site 645462008996 Mg binding site [ion binding]; other site 645462008997 putative homodimer interface [polypeptide binding]; other site 645462008998 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 645462008999 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 645462009000 NAD binding site [chemical binding]; other site 645462009001 sugar binding site [chemical binding]; other site 645462009002 divalent metal binding site [ion binding]; other site 645462009003 tetramer (dimer of dimers) interface [polypeptide binding]; other site 645462009004 dimer interface [polypeptide binding]; other site 645462009005 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 645462009006 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 645462009007 active site 645462009008 P-loop; other site 645462009009 phosphorylation site [posttranslational modification] 645462009010 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 645462009011 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 645462009012 DNA-binding site [nucleotide binding]; DNA binding site 645462009013 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 645462009014 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 645462009015 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_1; cd13140 645462009016 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 645462009017 metal binding site [ion binding]; metal-binding site 645462009018 active site 645462009019 I-site; other site 645462009020 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 645462009021 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 645462009022 dimer interface [polypeptide binding]; other site 645462009023 conserved gate region; other site 645462009024 putative PBP binding loops; other site 645462009025 ABC-ATPase subunit interface; other site 645462009026 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 645462009027 dimer interface [polypeptide binding]; other site 645462009028 conserved gate region; other site 645462009029 putative PBP binding loops; other site 645462009030 ABC-ATPase subunit interface; other site 645462009031 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 645462009032 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462009033 Walker A/P-loop; other site 645462009034 ATP binding site [chemical binding]; other site 645462009035 Q-loop/lid; other site 645462009036 ABC transporter signature motif; other site 645462009037 Walker B; other site 645462009038 D-loop; other site 645462009039 H-loop/switch region; other site 645462009040 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 645462009041 V-type ATP synthase subunit D; Reviewed; Region: PRK00373 645462009042 V-type ATP synthase subunit B; Provisional; Region: PRK04196 645462009043 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 645462009044 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 645462009045 Walker A motif homologous position; other site 645462009046 Walker B motif; other site 645462009047 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 645462009048 V-type ATP synthase subunit A; Provisional; Region: PRK04192 645462009049 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 645462009050 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 645462009051 Walker A motif/ATP binding site; other site 645462009052 Walker B motif; other site 645462009053 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 645462009054 V-type ATP synthase subunit F; Provisional; Region: PRK01395 645462009055 V-type ATP synthase subunit C; Provisional; Region: PRK01198 645462009056 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 645462009057 Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]; Region: NtpE; COG1390 645462009058 V-type ATP synthase subunit K; Validated; Region: PRK06558 645462009059 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 645462009060 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 645462009061 V-type ATP synthase subunit I; Validated; Region: PRK05771 645462009062 Nitrogen fixation protein of unknown function; Region: Nif11; cl06756 645462009063 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 645462009064 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 645462009065 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 645462009066 B3/4 domain; Region: B3_4; cl19243 645462009067 Cache domain; Region: Cache_1; pfam02743 645462009068 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 645462009069 metal binding site [ion binding]; metal-binding site 645462009070 active site 645462009071 I-site; other site 645462009072 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 645462009073 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 645462009074 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 645462009075 putative catalytic cysteine [active] 645462009076 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 645462009077 putative active site [active] 645462009078 metal binding site [ion binding]; metal-binding site 645462009079 dipicolinate synthase subunit B; Reviewed; Region: spoVFB; PRK08305 645462009080 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 645462009081 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 645462009082 NAD(P) binding pocket [chemical binding]; other site 645462009083 acyl-CoA synthetase; Validated; Region: PRK07638 645462009084 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 645462009085 AMP binding site [chemical binding]; other site 645462009086 active site 645462009087 acyl-activating enzyme (AAE) consensus motif; other site 645462009088 CoA binding site [chemical binding]; other site 645462009089 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 645462009090 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 645462009091 dimer interface [polypeptide binding]; other site 645462009092 active site 645462009093 BioY family; Region: BioY; pfam02632 645462009094 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 645462009095 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 645462009096 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 645462009097 Coenzyme A binding pocket [chemical binding]; other site 645462009098 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 645462009099 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-B; cd09722 645462009100 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 645462009101 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 645462009102 CRISPR/Cas system-associated protein Cas3; Region: Cas3_I; cd09639 645462009103 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 645462009104 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-B; cd09658 645462009105 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cd09687 645462009106 CRISPR/Cas system-associated protein Cas8a1; Region: Cas8a1_I-A; cl18979 645462009107 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 645462009108 WYL domain; Region: WYL; pfam13280 645462009109 FtsX-like permease family; Region: FtsX; pfam02687 645462009110 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 645462009111 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 645462009112 Walker A/P-loop; other site 645462009113 ATP binding site [chemical binding]; other site 645462009114 Q-loop/lid; other site 645462009115 ABC transporter signature motif; other site 645462009116 Walker B; other site 645462009117 D-loop; other site 645462009118 H-loop/switch region; other site 645462009119 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 645462009120 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462009121 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 645462009122 dimer interface [polypeptide binding]; other site 645462009123 phosphorylation site [posttranslational modification] 645462009124 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 645462009125 ATP binding site [chemical binding]; other site 645462009126 Mg2+ binding site [ion binding]; other site 645462009127 G-X-G motif; other site 645462009128 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462009129 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 645462009130 active site 645462009131 phosphorylation site [posttranslational modification] 645462009132 intermolecular recognition site; other site 645462009133 dimerization interface [polypeptide binding]; other site 645462009134 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 645462009135 DNA binding site [nucleotide binding] 645462009136 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 645462009137 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 645462009138 substrate binding pocket [chemical binding]; other site 645462009139 membrane-bound complex binding site; other site 645462009140 hinge residues; other site 645462009141 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 645462009142 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462009143 Walker A/P-loop; other site 645462009144 ATP binding site [chemical binding]; other site 645462009145 Q-loop/lid; other site 645462009146 ABC transporter signature motif; other site 645462009147 Walker B; other site 645462009148 D-loop; other site 645462009149 H-loop/switch region; other site 645462009150 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 645462009151 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 645462009152 dimer interface [polypeptide binding]; other site 645462009153 conserved gate region; other site 645462009154 putative PBP binding loops; other site 645462009155 ABC-ATPase subunit interface; other site 645462009156 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 645462009157 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 645462009158 dimer interface [polypeptide binding]; other site 645462009159 putative radical transfer pathway; other site 645462009160 diiron center [ion binding]; other site 645462009161 tyrosyl radical; other site 645462009162 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07632 645462009163 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 645462009164 Class I ribonucleotide reductase; Region: RNR_I; cd01679 645462009165 active site 645462009166 dimer interface [polypeptide binding]; other site 645462009167 catalytic residues [active] 645462009168 effector binding site; other site 645462009169 R2 peptide binding site; other site 645462009170 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 645462009171 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 645462009172 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 645462009173 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 645462009174 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 645462009175 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 645462009176 Walker A/P-loop; other site 645462009177 ATP binding site [chemical binding]; other site 645462009178 Q-loop/lid; other site 645462009179 ABC transporter signature motif; other site 645462009180 Walker B; other site 645462009181 D-loop; other site 645462009182 H-loop/switch region; other site 645462009183 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 645462009184 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 645462009185 Probable transposase; Region: OrfB_IS605; pfam01385 645462009186 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 645462009187 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 645462009188 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 645462009189 intersubunit interface [polypeptide binding]; other site 645462009190 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 645462009191 inhibitor site; inhibition site 645462009192 active site 645462009193 dimer interface [polypeptide binding]; other site 645462009194 catalytic residue [active] 645462009195 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 645462009196 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 645462009197 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 645462009198 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 645462009199 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 645462009200 Transcriptional regulator [Transcription]; Region: IclR; COG1414 645462009201 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 645462009202 Bacterial transcriptional regulator; Region: IclR; pfam01614 645462009203 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 645462009204 dimer interface [polypeptide binding]; other site 645462009205 active site 645462009206 metal binding site [ion binding]; metal-binding site 645462009207 Bacterial SH3 domain; Region: SH3_3; pfam08239 645462009208 Bacterial SH3 domain; Region: SH3_3; pfam08239 645462009209 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 645462009210 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 645462009211 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 645462009212 Squalene epoxidase; Region: SE; cl17314 645462009213 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 645462009214 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 645462009215 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 645462009216 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 645462009217 catalytic residues [active] 645462009218 Predicted transcriptional regulators [Transcription]; Region: COG1733 645462009219 alpha-mannosidase; Provisional; Region: PRK09819 645462009220 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 645462009221 active site 645462009222 metal binding site [ion binding]; metal-binding site 645462009223 catalytic site [active] 645462009224 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 645462009225 Glycosyl hydrolases family 38 C-terminal domain; Region: Glyco_hydro_38C; pfam07748 645462009226 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 645462009227 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 645462009228 active site 645462009229 P-loop; other site 645462009230 phosphorylation site [posttranslational modification] 645462009231 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 645462009232 active site 645462009233 phosphorylation site [posttranslational modification] 645462009234 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 645462009235 Mga helix-turn-helix domain; Region: Mga; pfam05043 645462009236 HTH domain; Region: HTH_11; pfam08279 645462009237 PRD domain; Region: PRD; pfam00874 645462009238 PRD domain; Region: PRD; pfam00874 645462009239 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 645462009240 active site 645462009241 P-loop; other site 645462009242 phosphorylation site [posttranslational modification] 645462009243 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 645462009244 active site 645462009245 phosphorylation site [posttranslational modification] 645462009246 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 645462009247 Sugar transport protein; Region: Sugar_transport; cl19288 645462009248 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 645462009249 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 645462009250 gating phenylalanine in ion channel; other site 645462009251 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 645462009252 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 645462009253 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 645462009254 Right handed beta helix region; Region: Beta_helix; pfam13229 645462009255 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 645462009256 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 645462009257 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 645462009258 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 645462009259 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 645462009260 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 645462009261 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 645462009262 HPr interaction site; other site 645462009263 glycerol kinase (GK) interaction site [polypeptide binding]; other site 645462009264 active site 645462009265 phosphorylation site [posttranslational modification] 645462009266 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 645462009267 putative active site [active] 645462009268 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 645462009269 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 645462009270 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462009271 homodimer interface [polypeptide binding]; other site 645462009272 catalytic residue [active] 645462009273 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 645462009274 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 645462009275 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 645462009276 active site turn [active] 645462009277 phosphorylation site [posttranslational modification] 645462009278 transcriptional antiterminator BglG; Provisional; Region: PRK09772 645462009279 CAT RNA binding domain; Region: CAT_RBD; smart01061 645462009280 PRD domain; Region: PRD; pfam00874 645462009281 PRD domain; Region: PRD; pfam00874 645462009282 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 645462009283 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 645462009284 catalytic residue [active] 645462009285 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 645462009286 catalytic residues [active] 645462009287 Predicted transcriptional regulators [Transcription]; Region: COG1378 645462009288 Sugar-specific transcriptional regulator TrmB; Region: TrmB; pfam01978 645462009289 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 645462009290 C-terminal domain interface [polypeptide binding]; other site 645462009291 sugar binding site [chemical binding]; other site 645462009292 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 645462009293 Diaminopimelate epimerase; Region: DAP_epimerase; cl19724 645462009294 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 645462009295 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 645462009296 putative substrate translocation pore; other site 645462009297 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 645462009298 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3864 645462009299 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 645462009300 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 645462009301 metal ion-dependent adhesion site (MIDAS); other site 645462009302 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 645462009303 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 645462009304 Walker A motif; other site 645462009305 ATP binding site [chemical binding]; other site 645462009306 Walker B motif; other site 645462009307 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 645462009308 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 645462009309 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 645462009310 Predicted membrane protein [Function unknown]; Region: COG4129 645462009311 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 645462009312 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 645462009313 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 645462009314 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 645462009315 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 645462009316 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 645462009317 putative active site [active] 645462009318 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 645462009319 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 645462009320 N-acetylmuramic acid 6-phosphate etherase; Region: TIGR00274 645462009321 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 645462009322 putative active site [active] 645462009323 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 645462009324 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 645462009325 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 645462009326 active site 645462009327 P-loop; other site 645462009328 phosphorylation site [posttranslational modification] 645462009329 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 645462009330 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462009331 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 645462009332 ATP binding site [chemical binding]; other site 645462009333 Mg2+ binding site [ion binding]; other site 645462009334 G-X-G motif; other site 645462009335 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462009336 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 645462009337 active site 645462009338 phosphorylation site [posttranslational modification] 645462009339 intermolecular recognition site; other site 645462009340 dimerization interface [polypeptide binding]; other site 645462009341 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 645462009342 DNA binding site [nucleotide binding] 645462009343 FtsX-like permease family; Region: FtsX; pfam02687 645462009344 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 645462009345 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 645462009346 Walker A/P-loop; other site 645462009347 ATP binding site [chemical binding]; other site 645462009348 Q-loop/lid; other site 645462009349 ABC transporter signature motif; other site 645462009350 Walker B; other site 645462009351 D-loop; other site 645462009352 H-loop/switch region; other site 645462009353 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 645462009354 Major Facilitator Superfamily; Region: MFS_1; pfam07690 645462009355 putative substrate translocation pore; other site 645462009356 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 645462009357 HPr interaction site; other site 645462009358 glycerol kinase (GK) interaction site [polypeptide binding]; other site 645462009359 active site 645462009360 phosphorylation site [posttranslational modification] 645462009361 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 645462009362 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 645462009363 NAD binding site [chemical binding]; other site 645462009364 sugar binding site [chemical binding]; other site 645462009365 divalent metal binding site [ion binding]; other site 645462009366 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 645462009367 dimer interface [polypeptide binding]; other site 645462009368 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 645462009369 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 645462009370 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 645462009371 active site turn [active] 645462009372 phosphorylation site [posttranslational modification] 645462009373 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 645462009374 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 645462009375 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 645462009376 putative active site [active] 645462009377 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 645462009378 Active site serine [active] 645462009379 xylose isomerase; Provisional; Region: PRK05474 645462009380 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 645462009381 N- and C-terminal domain interface [polypeptide binding]; other site 645462009382 D-xylulose kinase; Region: XylB; TIGR01312 645462009383 active site 645462009384 MgATP binding site [chemical binding]; other site 645462009385 catalytic site [active] 645462009386 metal binding site [ion binding]; metal-binding site 645462009387 xylulose binding site [chemical binding]; other site 645462009388 homodimer interface [polypeptide binding]; other site 645462009389 Transcriptional regulators [Transcription]; Region: MarR; COG1846 645462009390 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 645462009391 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 645462009392 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 645462009393 nucleotide binding site [chemical binding]; other site 645462009394 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 645462009395 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 645462009396 active pocket/dimerization site; other site 645462009397 active site 645462009398 phosphorylation site [posttranslational modification] 645462009399 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 645462009400 active site 645462009401 phosphorylation site [posttranslational modification] 645462009402 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 645462009403 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 645462009404 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 645462009405 Glycosyl hydrolases family 31; Region: Glyco_hydro_31; pfam01055 645462009406 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 645462009407 putative active site [active] 645462009408 putative catalytic site [active] 645462009409 Protein of unknown function (DUF523); Region: DUF523; cl00733 645462009410 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 645462009411 Protein of unknown function DUF262; Region: DUF262; pfam03235 645462009412 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 645462009413 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 645462009414 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 645462009415 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 645462009416 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 645462009417 ATP binding site [chemical binding]; other site 645462009418 putative Mg++ binding site [ion binding]; other site 645462009419 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 645462009420 nucleotide binding region [chemical binding]; other site 645462009421 ATP-binding site [chemical binding]; other site 645462009422 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 645462009423 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 645462009424 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 645462009425 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 645462009426 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 645462009427 HsdM N-terminal domain; Region: HsdM_N; pfam12161 645462009428 Methyltransferase domain; Region: Methyltransf_26; pfam13659 645462009429 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 645462009430 intersubunit interface [polypeptide binding]; other site 645462009431 active site 645462009432 zinc binding site [ion binding]; other site 645462009433 Na+ binding site [ion binding]; other site 645462009434 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 645462009435 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 645462009436 active site 645462009437 P-loop; other site 645462009438 phosphorylation site [posttranslational modification] 645462009439 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 645462009440 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 645462009441 active site 645462009442 phosphorylation site [posttranslational modification] 645462009443 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 645462009444 putative substrate binding site [chemical binding]; other site 645462009445 putative ATP binding site [chemical binding]; other site 645462009446 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 645462009447 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 645462009448 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 645462009449 putative active site [active] 645462009450 Predicted membrane protein [Function unknown]; Region: COG2364 645462009451 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 645462009452 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 645462009453 PTS system, Lactose/Cellobiose specific IIA subunit; Region: PTS_IIA; pfam02255 645462009454 active site 645462009455 methionine cluster; other site 645462009456 phosphorylation site [posttranslational modification] 645462009457 metal binding site [ion binding]; metal-binding site 645462009458 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 645462009459 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 645462009460 active site 645462009461 P-loop; other site 645462009462 phosphorylation site [posttranslational modification] 645462009463 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 645462009464 HTH domain; Region: HTH_11; pfam08279 645462009465 Mga helix-turn-helix domain; Region: Mga; pfam05043 645462009466 PRD domain; Region: PRD; pfam00874 645462009467 PRD domain; Region: PRD; pfam00874 645462009468 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 645462009469 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 645462009470 active site 645462009471 phosphorylation site [posttranslational modification] 645462009472 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 645462009473 alpha-mannosidase; Provisional; Region: PRK09819 645462009474 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 645462009475 active site 645462009476 metal binding site [ion binding]; metal-binding site 645462009477 catalytic site [active] 645462009478 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 645462009479 Glycosyl hydrolases family 38 C-terminal domain; Region: Glyco_hydro_38C; pfam07748 645462009480 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 645462009481 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 645462009482 active site 645462009483 phosphorylation site [posttranslational modification] 645462009484 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 645462009485 active site 645462009486 P-loop; other site 645462009487 phosphorylation site [posttranslational modification] 645462009488 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 645462009489 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 645462009490 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 645462009491 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 645462009492 putative active site [active] 645462009493 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_1; cd10805 645462009494 putative active site [active] 645462009495 YdjC motif; other site 645462009496 Mg binding site [ion binding]; other site 645462009497 putative homodimer interface [polypeptide binding]; other site 645462009498 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 645462009499 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 645462009500 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 645462009501 active site turn [active] 645462009502 phosphorylation site [posttranslational modification] 645462009503 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 645462009504 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 645462009505 DNA-binding site [nucleotide binding]; DNA binding site 645462009506 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 645462009507 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 645462009508 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 645462009509 Ca binding site [ion binding]; other site 645462009510 active site 645462009511 catalytic site [active] 645462009512 amino acid transporter; Region: 2A0306; TIGR00909 645462009513 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 645462009514 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 645462009515 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 645462009516 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 645462009517 catalytic triad [active] 645462009518 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 645462009519 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 645462009520 Walker A motif; other site 645462009521 ATP binding site [chemical binding]; other site 645462009522 Walker B motif; other site 645462009523 arginine finger; other site 645462009524 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 645462009525 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 645462009526 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 645462009527 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 645462009528 active site turn [active] 645462009529 phosphorylation site [posttranslational modification] 645462009530 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 645462009531 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 645462009532 HPr interaction site; other site 645462009533 glycerol kinase (GK) interaction site [polypeptide binding]; other site 645462009534 active site 645462009535 phosphorylation site [posttranslational modification] 645462009536 transcriptional antiterminator BglG; Provisional; Region: PRK09772 645462009537 CAT RNA binding domain; Region: CAT_RBD; smart01061 645462009538 PRD domain; Region: PRD; pfam00874 645462009539 PRD domain; Region: PRD; pfam00874 645462009540 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 645462009541 Peptidase family M20/M25/M40; Region: Peptidase_M20; pfam01546 645462009542 metal binding site [ion binding]; metal-binding site 645462009543 Predicted membrane protein [Function unknown]; Region: COG1288 645462009544 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 645462009545 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 645462009546 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 645462009547 active site turn [active] 645462009548 phosphorylation site [posttranslational modification] 645462009549 dipeptidase PepV; Reviewed; Region: PRK07318 645462009550 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 645462009551 active site 645462009552 metal binding site [ion binding]; metal-binding site 645462009553 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 645462009554 HPr interaction site; other site 645462009555 glycerol kinase (GK) interaction site [polypeptide binding]; other site 645462009556 active site 645462009557 phosphorylation site [posttranslational modification] 645462009558 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 645462009559 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 645462009560 active site 645462009561 motif I; other site 645462009562 motif II; other site 645462009563 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 645462009564 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH1; cd08185 645462009565 putative active site [active] 645462009566 metal binding site [ion binding]; metal-binding site 645462009567 Class I aldolases; Region: Aldolase_Class_I; cl17187 645462009568 catalytic residue [active] 645462009569 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 645462009570 HTH domain; Region: HTH_11; pfam08279 645462009571 Mga helix-turn-helix domain; Region: Mga; pfam05043 645462009572 PRD domain; Region: PRD; pfam00874 645462009573 PRD domain; Region: PRD; pfam00874 645462009574 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 645462009575 active site 645462009576 P-loop; other site 645462009577 phosphorylation site [posttranslational modification] 645462009578 Uncharacterized conserved protein [Function unknown]; Region: COG1284 645462009579 Domain of unknown function (DUF373); Region: DUF373; cl12079 645462009580 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 645462009581 phosphate binding site [ion binding]; other site 645462009582 6-phosphofructokinase; Provisional; Region: PRK14072 645462009583 active site 645462009584 ADP/pyrophosphate binding site [chemical binding]; other site 645462009585 dimerization interface [polypeptide binding]; other site 645462009586 allosteric effector site; other site 645462009587 fructose-1,6-bisphosphate binding site; other site 645462009588 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 645462009589 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 645462009590 Probable transposase; Region: OrfB_IS605; pfam01385 645462009591 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 645462009592 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 645462009593 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 645462009594 metal binding site [ion binding]; metal-binding site 645462009595 dimer interface [polypeptide binding]; other site 645462009596 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 645462009597 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 645462009598 putative metal binding site [ion binding]; other site 645462009599 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; cl01046 645462009600 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 645462009601 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 645462009602 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 645462009603 active site turn [active] 645462009604 phosphorylation site [posttranslational modification] 645462009605 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 645462009606 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 645462009607 HPr interaction site; other site 645462009608 glycerol kinase (GK) interaction site [polypeptide binding]; other site 645462009609 active site 645462009610 phosphorylation site [posttranslational modification] 645462009611 transcriptional antiterminator BglG; Provisional; Region: PRK09772 645462009612 CAT RNA binding domain; Region: CAT_RBD; smart01061 645462009613 PRD domain; Region: PRD; pfam00874 645462009614 PRD domain; Region: PRD; pfam00874 645462009615 Protein of unknown function (DUF3139); Region: DUF3139; pfam11337 645462009616 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 645462009617 glycosyltransferase, MGT family; Region: MGT; TIGR01426 645462009618 active site 645462009619 TDP-binding site; other site 645462009620 acceptor substrate-binding pocket; other site 645462009621 homodimer interface [polypeptide binding]; other site 645462009622 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 645462009623 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 645462009624 putative catalytic residues [active] 645462009625 catalytic nucleophile [active] 645462009626 Recombinase; Region: Recombinase; pfam07508 645462009627 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 645462009628 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 645462009629 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 645462009630 non-specific DNA binding site [nucleotide binding]; other site 645462009631 salt bridge; other site 645462009632 sequence-specific DNA binding site [nucleotide binding]; other site 645462009633 Replication initiation factor; Region: Rep_trans; pfam02486 645462009634 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 645462009635 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 645462009636 active site 645462009637 FMN binding site [chemical binding]; other site 645462009638 substrate binding site [chemical binding]; other site 645462009639 putative catalytic residue [active] 645462009640 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 645462009641 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 645462009642 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 645462009643 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 645462009644 putative substrate translocation pore; other site 645462009645 Predicted transcriptional regulators [Transcription]; Region: COG1695 645462009646 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 645462009647 Flavodoxin domain; Region: Flavodoxin_5; cl17428 645462009648 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 645462009649 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 645462009650 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 645462009651 dimerization interface [polypeptide binding]; other site 645462009652 putative DNA binding site [nucleotide binding]; other site 645462009653 putative Zn2+ binding site [ion binding]; other site 645462009654 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 645462009655 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 645462009656 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 645462009657 FMN binding site [chemical binding]; other site 645462009658 dimer interface [polypeptide binding]; other site 645462009659 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; cl01046 645462009660 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 645462009661 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 645462009662 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 645462009663 active site turn [active] 645462009664 phosphorylation site [posttranslational modification] 645462009665 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 645462009666 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 645462009667 HPr interaction site; other site 645462009668 glycerol kinase (GK) interaction site [polypeptide binding]; other site 645462009669 active site 645462009670 phosphorylation site [posttranslational modification] 645462009671 CAT RNA binding domain; Region: CAT_RBD; smart01061 645462009672 transcriptional antiterminator BglG; Provisional; Region: PRK09772 645462009673 PRD domain; Region: PRD; pfam00874 645462009674 PRD domain; Region: PRD; pfam00874 645462009675 PTS system cellobiose/arbutin/salicin-specific transporter subunits IIBC; Provisional; Region: PRK09796 645462009676 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 645462009677 active site turn [active] 645462009678 phosphorylation site [posttranslational modification] 645462009679 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 645462009680 beta-phosphoglucomutase; Region: bPGM; TIGR01990 645462009681 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 645462009682 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 645462009683 motif II; other site 645462009684 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 645462009685 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 645462009686 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 645462009687 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 645462009688 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 645462009689 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; cl01046 645462009690 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 645462009691 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 645462009692 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 645462009693 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 645462009694 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 645462009695 active site 645462009696 phosphorylation site [posttranslational modification] 645462009697 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 645462009698 HTH domain; Region: HTH_11; pfam08279 645462009699 Mga helix-turn-helix domain; Region: Mga; pfam05043 645462009700 PRD domain; Region: PRD; pfam00874 645462009701 PRD domain; Region: PRD; pfam00874 645462009702 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 645462009703 active site 645462009704 P-loop; other site 645462009705 phosphorylation site [posttranslational modification] 645462009706 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 645462009707 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 645462009708 active site 645462009709 phosphorylation site [posttranslational modification] 645462009710 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 645462009711 active site 645462009712 P-loop; other site 645462009713 phosphorylation site [posttranslational modification] 645462009714 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 645462009715 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 645462009716 intersubunit interface [polypeptide binding]; other site 645462009717 active site 645462009718 zinc binding site [ion binding]; other site 645462009719 Na+ binding site [ion binding]; other site 645462009720 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 645462009721 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 645462009722 dimer interface [polypeptide binding]; other site 645462009723 conserved gate region; other site 645462009724 putative PBP binding loops; other site 645462009725 ABC-ATPase subunit interface; other site 645462009726 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 645462009727 dimer interface [polypeptide binding]; other site 645462009728 conserved gate region; other site 645462009729 putative PBP binding loops; other site 645462009730 ABC-ATPase subunit interface; other site 645462009731 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 645462009732 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462009733 Walker A/P-loop; other site 645462009734 ATP binding site [chemical binding]; other site 645462009735 Q-loop/lid; other site 645462009736 ABC transporter signature motif; other site 645462009737 Walker B; other site 645462009738 D-loop; other site 645462009739 H-loop/switch region; other site 645462009740 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 645462009741 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 645462009742 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_3; cd03140 645462009743 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 645462009744 conserved cys residue [active] 645462009745 Predicted transcriptional regulator [Transcription]; Region: COG2378 645462009746 HTH domain; Region: HTH_11; pfam08279 645462009747 WYL domain; Region: WYL; pfam13280 645462009748 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 645462009749 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 645462009750 Protein of unknown function DUF262; Region: DUF262; pfam03235 645462009751 FRG domain; Region: FRG; pfam08867 645462009752 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 645462009753 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 645462009754 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 645462009755 CRISPR/Cas system-associated protein Cas3; Region: Cas3_I; cd09639 645462009756 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 645462009757 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I; cl00803 645462009758 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 645462009759 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cd09693 645462009760 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3183 645462009761 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 645462009762 active site 645462009763 phage replicative helicase, DnaB family, HK022 subfamily; Region: phage_DnaB; TIGR03600 645462009764 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 645462009765 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 645462009766 Walker A motif; other site 645462009767 ATP binding site [chemical binding]; other site 645462009768 Walker B motif; other site 645462009769 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 645462009770 Excisionase from transposon Tn916; Region: Tn916-Xis; pfam09035 645462009771 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 645462009772 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 645462009773 non-specific DNA binding site [nucleotide binding]; other site 645462009774 salt bridge; other site 645462009775 sequence-specific DNA binding site [nucleotide binding]; other site 645462009776 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 645462009777 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 645462009778 non-specific DNA binding site [nucleotide binding]; other site 645462009779 salt bridge; other site 645462009780 sequence-specific DNA binding site [nucleotide binding]; other site 645462009781 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 645462009782 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 645462009783 non-specific DNA binding site [nucleotide binding]; other site 645462009784 salt bridge; other site 645462009785 sequence-specific DNA binding site [nucleotide binding]; other site 645462009786 Fic family protein [Function unknown]; Region: COG3177 645462009787 Fic/DOC family; Region: Fic; pfam02661 645462009788 Phage integrase, N-terminal SAM-like domain; Region: Phage_int_SAM_3; pfam14659 645462009789 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 645462009790 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 645462009791 DNA binding site [nucleotide binding] 645462009792 Int/Topo IB signature motif; other site 645462009793 active site 645462009794 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 645462009795 Protein of unknown function (DUF3791); Region: DUF3791; pfam12668 645462009796 P63C domain; Region: P63C; pfam10546 645462009797 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 645462009798 SmpB-tmRNA interface; other site 645462009799 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 645462009800 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 645462009801 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 645462009802 Coenzyme A binding pocket [chemical binding]; other site 645462009803 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 645462009804 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 645462009805 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 645462009806 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 645462009807 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 645462009808 Walker A/P-loop; other site 645462009809 ATP binding site [chemical binding]; other site 645462009810 Q-loop/lid; other site 645462009811 ABC transporter signature motif; other site 645462009812 Walker B; other site 645462009813 D-loop; other site 645462009814 H-loop/switch region; other site 645462009815 Domain of unknown function (DUF1877); Region: DUF1877; pfam08974 645462009816 ribonuclease R; Region: RNase_R; TIGR02063 645462009817 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 645462009818 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 645462009819 RNB domain; Region: RNB; pfam00773 645462009820 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 645462009821 RNA binding site [nucleotide binding]; other site 645462009822 A new structural DNA glycosylase; Region: AlkD_like; cl11434 645462009823 HEAT repeats; Region: HEAT_2; pfam13646 645462009824 active site 645462009825 Predicted transcriptional regulators [Transcription]; Region: COG1733 645462009826 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 645462009827 substrate binding site [chemical binding]; other site 645462009828 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 645462009829 dimer interface [polypeptide binding]; other site 645462009830 metal binding site [ion binding]; metal-binding site 645462009831 Predicted permeases [General function prediction only]; Region: COG0679 645462009832 protein translocase, SecG subunit; Region: secG; TIGR00810 645462009833 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 645462009834 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 645462009835 Coenzyme A binding pocket [chemical binding]; other site 645462009836 enolase; Provisional; Region: eno; PRK00077 645462009837 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 645462009838 dimer interface [polypeptide binding]; other site 645462009839 metal binding site [ion binding]; metal-binding site 645462009840 substrate binding pocket [chemical binding]; other site 645462009841 phosphoglyceromutase; Provisional; Region: PRK05434 645462009842 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 645462009843 substrate binding site [chemical binding]; other site 645462009844 dimer interface [polypeptide binding]; other site 645462009845 catalytic triad [active] 645462009846 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 645462009847 substrate binding site [chemical binding]; other site 645462009848 hinge regions; other site 645462009849 ADP binding site [chemical binding]; other site 645462009850 catalytic site [active] 645462009851 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 645462009852 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 645462009853 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 645462009854 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 645462009855 Predicted transcriptional regulator [Transcription]; Region: COG3388 645462009856 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 645462009857 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 645462009858 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 645462009859 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 645462009860 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 645462009861 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 645462009862 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 645462009863 catalytic loop [active] 645462009864 iron binding site [ion binding]; other site 645462009865 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 645462009866 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 645462009867 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 645462009868 phenylhydantoinase; Validated; Region: PRK08323 645462009869 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 645462009870 tetramer interface [polypeptide binding]; other site 645462009871 active site 645462009872 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 645462009873 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 645462009874 active site 645462009875 FMN binding site [chemical binding]; other site 645462009876 substrate binding site [chemical binding]; other site 645462009877 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 645462009878 Sulfate transporter family; Region: Sulfate_transp; cl19250 645462009879 xanthine permease; Region: pbuX; TIGR03173 645462009880 putative chlorohydrolase/aminohydrolase; Validated; Region: PRK07203 645462009881 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 645462009882 active site 645462009883 putative substrate binding pocket [chemical binding]; other site 645462009884 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 645462009885 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 645462009886 active site 645462009887 putative substrate binding pocket [chemical binding]; other site 645462009888 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 645462009889 peptidase; Reviewed; Region: PRK13004 645462009890 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 645462009891 putative metal binding site [ion binding]; other site 645462009892 putative dimer interface [polypeptide binding]; other site 645462009893 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 645462009894 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 645462009895 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 645462009896 catalytic residue [active] 645462009897 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 645462009898 GAF domain; Region: GAF; cl17456 645462009899 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 645462009900 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 645462009901 Walker A motif; other site 645462009902 ATP binding site [chemical binding]; other site 645462009903 Walker B motif; other site 645462009904 arginine finger; other site 645462009905 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 645462009906 homotrimer interaction site [polypeptide binding]; other site 645462009907 putative active site [active] 645462009908 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 645462009909 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 645462009910 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 645462009911 DNA binding residues [nucleotide binding] 645462009912 putative dimer interface [polypeptide binding]; other site 645462009913 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 645462009914 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 645462009915 active site 645462009916 catalytic tetrad [active] 645462009917 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 645462009918 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462009919 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462009920 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 645462009921 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 645462009922 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 645462009923 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 645462009924 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 645462009925 Walker A/P-loop; other site 645462009926 ATP binding site [chemical binding]; other site 645462009927 Q-loop/lid; other site 645462009928 ABC transporter signature motif; other site 645462009929 Walker B; other site 645462009930 D-loop; other site 645462009931 H-loop/switch region; other site 645462009932 FtsX-like permease family; Region: FtsX; pfam02687 645462009933 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 645462009934 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 645462009935 ATP binding site [chemical binding]; other site 645462009936 Mg2+ binding site [ion binding]; other site 645462009937 G-X-G motif; other site 645462009938 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 645462009939 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 645462009940 active site 645462009941 phosphorylation site [posttranslational modification] 645462009942 intermolecular recognition site; other site 645462009943 dimerization interface [polypeptide binding]; other site 645462009944 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 645462009945 DNA binding residues [nucleotide binding] 645462009946 dimerization interface [polypeptide binding]; other site 645462009947 Homeodomain-like domain; Region: HTH_23; pfam13384 645462009948 Conserved phage C-terminus (Phg_2220_C); Region: Phg_2220_C; pfam09524 645462009949 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 645462009950 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 645462009951 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 645462009952 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 645462009953 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 645462009954 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 645462009955 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462009956 Walker A/P-loop; other site 645462009957 ATP binding site [chemical binding]; other site 645462009958 Q-loop/lid; other site 645462009959 ABC transporter signature motif; other site 645462009960 Walker B; other site 645462009961 D-loop; other site 645462009962 H-loop/switch region; other site 645462009963 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 645462009964 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 645462009965 First Helix-Turn-Helix DNA binding domain of the regulatory protein TioE; Region: HTH_TioE_rpt1; cd04772 645462009966 DNA binding residues [nucleotide binding] 645462009967 putative dimer interface [polypeptide binding]; other site 645462009968 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 645462009969 DNA binding residues [nucleotide binding] 645462009970 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 645462009971 dimer interface [polypeptide binding]; other site 645462009972 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 645462009973 H+ Antiporter protein; Region: 2A0121; TIGR00900 645462009974 putative substrate translocation pore; other site 645462009975 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 645462009976 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 645462009977 Acyltransferase family; Region: Acyl_transf_3; cl19154 645462009978 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 645462009979 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 645462009980 Walker A/P-loop; other site 645462009981 ATP binding site [chemical binding]; other site 645462009982 Q-loop/lid; other site 645462009983 ABC transporter signature motif; other site 645462009984 Walker B; other site 645462009985 D-loop; other site 645462009986 H-loop/switch region; other site 645462009987 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462009988 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 645462009989 dimerization interface [polypeptide binding]; other site 645462009990 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 645462009991 dimer interface [polypeptide binding]; other site 645462009992 phosphorylation site [posttranslational modification] 645462009993 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 645462009994 ATP binding site [chemical binding]; other site 645462009995 Mg2+ binding site [ion binding]; other site 645462009996 G-X-G motif; other site 645462009997 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462009998 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 645462009999 active site 645462010000 phosphorylation site [posttranslational modification] 645462010001 intermolecular recognition site; other site 645462010002 dimerization interface [polypeptide binding]; other site 645462010003 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 645462010004 DNA binding site [nucleotide binding] 645462010005 60Kd inner membrane protein; Region: 60KD_IMP; pfam02096 645462010006 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 645462010007 FMN binding site [chemical binding]; other site 645462010008 dimer interface [polypeptide binding]; other site 645462010009 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 645462010010 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 645462010011 Transcriptional regulators [Transcription]; Region: MarR; COG1846 645462010012 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 645462010013 Predicted transcriptional regulators [Transcription]; Region: COG1695 645462010014 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 645462010015 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 645462010016 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 645462010017 S-adenosylmethionine binding site [chemical binding]; other site 645462010018 Protein of unknown function (DUF3781); Region: DUF3781; pfam12636 645462010019 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 645462010020 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 645462010021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462010022 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 645462010023 Walker A/P-loop; other site 645462010024 ATP binding site [chemical binding]; other site 645462010025 Q-loop/lid; other site 645462010026 ABC transporter signature motif; other site 645462010027 Walker B; other site 645462010028 D-loop; other site 645462010029 H-loop/switch region; other site 645462010030 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 645462010031 dimer interface [polypeptide binding]; other site 645462010032 conserved gate region; other site 645462010033 putative PBP binding loops; other site 645462010034 ABC-ATPase subunit interface; other site 645462010035 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 645462010036 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 645462010037 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 645462010038 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462010039 Walker A/P-loop; other site 645462010040 ATP binding site [chemical binding]; other site 645462010041 Q-loop/lid; other site 645462010042 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cl19048 645462010043 ABC transporter signature motif; other site 645462010044 Walker B; other site 645462010045 D-loop; other site 645462010046 H-loop/switch region; other site 645462010047 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 645462010048 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 645462010049 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 645462010050 dimerization interface [polypeptide binding]; other site 645462010051 domain crossover interface; other site 645462010052 redox-dependent activation switch; other site 645462010053 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 645462010054 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 645462010055 S-adenosylmethionine binding site [chemical binding]; other site 645462010056 Histidine-specific methyltransferase, SAM-dependent; Region: Methyltransf_33; pfam10017 645462010057 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 645462010058 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 645462010059 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 645462010060 metal binding site [ion binding]; metal-binding site 645462010061 dimer interface [polypeptide binding]; other site 645462010062 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 645462010063 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 645462010064 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 645462010065 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 645462010066 dimer interface [polypeptide binding]; other site 645462010067 active site 645462010068 catalytic residue [active] 645462010069 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 645462010070 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 645462010071 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 645462010072 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 645462010073 dimer interface [polypeptide binding]; other site 645462010074 active site 645462010075 catalytic residue [active] 645462010076 dihydrodipicolinate reductase; Provisional; Region: PRK00048 645462010077 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 645462010078 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 645462010079 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 645462010080 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 645462010081 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 645462010082 active site 645462010083 trimer interface [polypeptide binding]; other site 645462010084 substrate binding site [chemical binding]; other site 645462010085 CoA binding site [chemical binding]; other site 645462010086 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 645462010087 putative CoA binding site [chemical binding]; other site 645462010088 putative trimer interface [polypeptide binding]; other site 645462010089 Uncharacterized family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_like_u2; cd03402 645462010090 prohibitin homologues; Region: PHB; smart00244 645462010091 dihydrodipicolinate reductase; Provisional; Region: PRK00048 645462010092 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 645462010093 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 645462010094 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 645462010095 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 645462010096 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 645462010097 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 645462010098 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 645462010099 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 645462010100 active site 645462010101 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 645462010102 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 645462010103 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 645462010104 Walker A motif; other site 645462010105 ATP binding site [chemical binding]; other site 645462010106 Walker B motif; other site 645462010107 arginine finger; other site 645462010108 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 645462010109 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 645462010110 single-stranded DNA-binding protein; Provisional; Region: PRK05813 645462010111 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 645462010112 dimer interface [polypeptide binding]; other site 645462010113 ssDNA binding site [nucleotide binding]; other site 645462010114 tetramer (dimer of dimers) interface [polypeptide binding]; other site 645462010115 Predicted permeases [General function prediction only]; Region: COG0730 645462010116 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 645462010117 proline racemase; Provisional; Region: PRK13969 645462010118 hydroxyproline-2-epimerase; Provisional; Region: PRK13971; cl19687 645462010119 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 645462010120 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 645462010121 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 645462010122 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 645462010123 FOG: CBS domain [General function prediction only]; Region: COG0517 645462010124 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 645462010125 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 645462010126 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 645462010127 Walker A motif; other site 645462010128 ATP binding site [chemical binding]; other site 645462010129 Walker B motif; other site 645462010130 arginine finger; other site 645462010131 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 645462010132 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 645462010133 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 645462010134 SLBB domain; Region: SLBB; pfam10531 645462010135 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 645462010136 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 645462010137 Domain of unknown function (DUF4364); Region: DUF4364; pfam14277 645462010138 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 645462010139 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 645462010140 TSCPD domain; Region: TSCPD; cl14834 645462010141 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 645462010142 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 645462010143 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 645462010144 Peptidase S8 family domain, uncharacterized subfamily 8; Region: Peptidases_S8_8; cd07492 645462010145 Subtilase family; Region: Peptidase_S8; pfam00082 645462010146 active site 645462010147 catalytic triad [active] 645462010148 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 645462010149 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 645462010150 active site 645462010151 phosphorylation site [posttranslational modification] 645462010152 intermolecular recognition site; other site 645462010153 dimerization interface [polypeptide binding]; other site 645462010154 LytTr DNA-binding domain; Region: LytTR; smart00850 645462010155 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 645462010156 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 645462010157 active site 645462010158 HIGH motif; other site 645462010159 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 645462010160 KMSKS motif; other site 645462010161 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 645462010162 tRNA binding surface [nucleotide binding]; other site 645462010163 anticodon binding site; other site 645462010164 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 645462010165 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 645462010166 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 645462010167 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 645462010168 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 645462010169 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 645462010170 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 645462010171 PhoU domain; Region: PhoU; pfam01895 645462010172 PhoU domain; Region: PhoU; pfam01895 645462010173 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 645462010174 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 645462010175 Walker A/P-loop; other site 645462010176 ATP binding site [chemical binding]; other site 645462010177 Q-loop/lid; other site 645462010178 ABC transporter signature motif; other site 645462010179 Walker B; other site 645462010180 D-loop; other site 645462010181 H-loop/switch region; other site 645462010182 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 645462010183 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 645462010184 dimer interface [polypeptide binding]; other site 645462010185 conserved gate region; other site 645462010186 putative PBP binding loops; other site 645462010187 ABC-ATPase subunit interface; other site 645462010188 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 645462010189 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 645462010190 dimer interface [polypeptide binding]; other site 645462010191 conserved gate region; other site 645462010192 putative PBP binding loops; other site 645462010193 ABC-ATPase subunit interface; other site 645462010194 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 645462010195 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 645462010196 Walker A/P-loop; other site 645462010197 ATP binding site [chemical binding]; other site 645462010198 Q-loop/lid; other site 645462010199 ABC transporter signature motif; other site 645462010200 Walker B; other site 645462010201 D-loop; other site 645462010202 H-loop/switch region; other site 645462010203 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462010204 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 645462010205 dimer interface [polypeptide binding]; other site 645462010206 phosphorylation site [posttranslational modification] 645462010207 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 645462010208 ATP binding site [chemical binding]; other site 645462010209 Mg2+ binding site [ion binding]; other site 645462010210 G-X-G motif; other site 645462010211 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462010212 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 645462010213 active site 645462010214 phosphorylation site [posttranslational modification] 645462010215 intermolecular recognition site; other site 645462010216 dimerization interface [polypeptide binding]; other site 645462010217 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 645462010218 DNA binding site [nucleotide binding] 645462010219 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462010220 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 645462010221 active site 645462010222 phosphorylation site [posttranslational modification] 645462010223 intermolecular recognition site; other site 645462010224 dimerization interface [polypeptide binding]; other site 645462010225 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 645462010226 DNA binding site [nucleotide binding] 645462010227 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; cl09440 645462010228 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 645462010229 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 645462010230 dimer interface [polypeptide binding]; other site 645462010231 phosphorylation site [posttranslational modification] 645462010232 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 645462010233 ATP binding site [chemical binding]; other site 645462010234 Mg2+ binding site [ion binding]; other site 645462010235 G-X-G motif; other site 645462010236 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462010237 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 645462010238 active site 645462010239 phosphorylation site [posttranslational modification] 645462010240 intermolecular recognition site; other site 645462010241 dimerization interface [polypeptide binding]; other site 645462010242 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 645462010243 DNA binding site [nucleotide binding] 645462010244 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 645462010245 oligoendopeptidase F; Region: pepF; TIGR00181 645462010246 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 645462010247 active site 645462010248 Zn binding site [ion binding]; other site 645462010249 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 645462010250 MgtC family; Region: MgtC; pfam02308 645462010251 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 645462010252 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 645462010253 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 645462010254 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 645462010255 G1 box; other site 645462010256 GTP/Mg2+ binding site [chemical binding]; other site 645462010257 Switch I region; other site 645462010258 G2 box; other site 645462010259 G3 box; other site 645462010260 Switch II region; other site 645462010261 G4 box; other site 645462010262 G5 box; other site 645462010263 Nucleoside recognition; Region: Gate; pfam07670 645462010264 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 645462010265 Nucleoside recognition; Region: Gate; pfam07670 645462010266 Virus attachment protein p12 family; Region: P12; pfam12669 645462010267 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 645462010268 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 645462010269 dimer interface [polypeptide binding]; other site 645462010270 active site 645462010271 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 645462010272 dimer interface [polypeptide binding]; other site 645462010273 active site 645462010274 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 645462010275 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 645462010276 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 645462010277 active pocket/dimerization site; other site 645462010278 active site 645462010279 phosphorylation site [posttranslational modification] 645462010280 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 645462010281 active site 645462010282 phosphorylation site [posttranslational modification] 645462010283 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 645462010284 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 645462010285 Walker A motif; other site 645462010286 ATP binding site [chemical binding]; other site 645462010287 Walker B motif; other site 645462010288 arginine finger; other site 645462010289 Transcriptional antiterminator [Transcription]; Region: COG3933 645462010290 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 645462010291 active pocket/dimerization site; other site 645462010292 active site 645462010293 phosphorylation site [posttranslational modification] 645462010294 PRD domain; Region: PRD; pfam00874 645462010295 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 645462010296 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 645462010297 Pyrroline-5-carboxylate reductase dimerization; Region: P5CR_dimer; pfam14748 645462010298 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 645462010299 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 645462010300 dimer interface [polypeptide binding]; other site 645462010301 active site 645462010302 glycine loop; other site 645462010303 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 645462010304 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 645462010305 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 645462010306 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 645462010307 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 645462010308 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 645462010309 protein binding site [polypeptide binding]; other site 645462010310 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 645462010311 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 645462010312 active site 645462010313 dimer interface [polypeptide binding]; other site 645462010314 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 645462010315 dimer interface [polypeptide binding]; other site 645462010316 active site 645462010317 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 645462010318 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 645462010319 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 645462010320 PhoU domain; Region: PhoU; pfam01895 645462010321 PhoU domain; Region: PhoU; pfam01895 645462010322 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 645462010323 SEC-C motif; Region: SEC-C; pfam02810 645462010324 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 645462010325 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 645462010326 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 645462010327 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 645462010328 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 645462010329 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 645462010330 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 645462010331 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 645462010332 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 645462010333 Walker A motif; other site 645462010334 ATP binding site [chemical binding]; other site 645462010335 Walker B motif; other site 645462010336 Sec1 family; Region: Sec1; cl15415 645462010337 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 645462010338 hypothetical protein; Provisional; Region: PRK06851 645462010339 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 645462010340 Walker A motif; other site 645462010341 ATP binding site [chemical binding]; other site 645462010342 Walker B motif; other site 645462010343 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 645462010344 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 645462010345 putative substrate translocation pore; other site 645462010346 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 645462010347 G1 box; other site 645462010348 GTP/Mg2+ binding site [chemical binding]; other site 645462010349 Switch I region; other site 645462010350 G2 box; other site 645462010351 G3 box; other site 645462010352 Switch II region; other site 645462010353 G4 box; other site 645462010354 G5 box; other site 645462010355 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 645462010356 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 645462010357 Biogenesis of lysosome-related organelles complex-1 subunit 2; Region: BLOC1_2; pfam10046 645462010358 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 645462010359 Walker A motif; other site 645462010360 ATP binding site [chemical binding]; other site 645462010361 Walker B motif; other site 645462010362 arginine finger; other site 645462010363 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 645462010364 Chromate transporter; Region: Chromate_transp; pfam02417 645462010365 Chromate transporter; Region: Chromate_transp; pfam02417 645462010366 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 645462010367 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 645462010368 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 645462010369 Walker A motif; other site 645462010370 ATP binding site [chemical binding]; other site 645462010371 Walker B motif; other site 645462010372 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 645462010373 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 645462010374 oligomer interface [polypeptide binding]; other site 645462010375 active site residues [active] 645462010376 trigger factor; Provisional; Region: tig; PRK01490 645462010377 Bacterial trigger factor protein (TF); Region: Trigger_N; pfam05697 645462010378 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 645462010379 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 645462010380 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 645462010381 active site 645462010382 metal binding site [ion binding]; metal-binding site 645462010383 homotetramer interface [polypeptide binding]; other site 645462010384 ribonuclease PH; Reviewed; Region: rph; PRK00173 645462010385 Ribonuclease PH; Region: RNase_PH_bact; cd11362 645462010386 hexamer interface [polypeptide binding]; other site 645462010387 active site 645462010388 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 645462010389 active site 645462010390 dimerization interface [polypeptide binding]; other site 645462010391 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 645462010392 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 645462010393 nucleotide binding pocket [chemical binding]; other site 645462010394 K-X-D-G motif; other site 645462010395 catalytic site [active] 645462010396 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 645462010397 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 645462010398 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 645462010399 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 645462010400 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 645462010401 Dimer interface [polypeptide binding]; other site 645462010402 BRCT sequence motif; other site 645462010403 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 645462010404 Phosphoglycerate Dehydrogenase, 2-hydroxyacid dehydrogenase family; Region: PGDH_1; cd12155 645462010405 putative ligand binding site [chemical binding]; other site 645462010406 NAD binding site [chemical binding]; other site 645462010407 catalytic site [active] 645462010408 Domain of unknown function (DUF3783); Region: DUF3783; pfam12646 645462010409 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 645462010410 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 645462010411 putative substrate translocation pore; other site 645462010412 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 645462010413 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 645462010414 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 645462010415 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 645462010416 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 645462010417 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 645462010418 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 645462010419 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 645462010420 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 645462010421 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 645462010422 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 645462010423 [4Fe-4S] binding site [ion binding]; other site 645462010424 molybdopterin cofactor binding site; other site 645462010425 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 645462010426 molybdopterin cofactor binding site; other site 645462010427 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 645462010428 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462010429 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 645462010430 active site 645462010431 phosphorylation site [posttranslational modification] 645462010432 intermolecular recognition site; other site 645462010433 dimerization interface [polypeptide binding]; other site 645462010434 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 645462010435 DNA binding site [nucleotide binding] 645462010436 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 645462010437 Prenyltransferase-like; Region: Prenyltrans_1; pfam13243 645462010438 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 645462010439 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 645462010440 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462010441 Walker A/P-loop; other site 645462010442 ATP binding site [chemical binding]; other site 645462010443 Q-loop/lid; other site 645462010444 ABC transporter signature motif; other site 645462010445 Walker B; other site 645462010446 D-loop; other site 645462010447 H-loop/switch region; other site 645462010448 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 645462010449 Accessory gene regulator B; Region: AgrB; pfam04647 645462010450 cyclic lactone autoinducer peptide; Region: quorum_AgrD; TIGR04223 645462010451 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 645462010452 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 645462010453 ATP binding site [chemical binding]; other site 645462010454 Mg2+ binding site [ion binding]; other site 645462010455 G-X-G motif; other site 645462010456 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 645462010457 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 645462010458 active site 645462010459 phosphorylation site [posttranslational modification] 645462010460 intermolecular recognition site; other site 645462010461 dimerization interface [polypeptide binding]; other site 645462010462 LytTr DNA-binding domain; Region: LytTR; smart00850 645462010463 Protein of unknown function (DUF1062); Region: DUF1062; pfam06353 645462010464 Mor transcription activator family; Region: Mor; cl02360 645462010465 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 645462010466 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 645462010467 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 645462010468 BclB C-terminal domain; Region: exospore_TM; TIGR03721 645462010469 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 645462010470 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 645462010471 putative metal binding site; other site 645462010472 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 645462010473 binding surface 645462010474 TPR motif; other site 645462010475 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 645462010476 oligomer interface [polypeptide binding]; other site 645462010477 active site residues [active] 645462010478 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 645462010479 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 645462010480 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 645462010481 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 645462010482 DNA-binding site [nucleotide binding]; DNA binding site 645462010483 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 645462010484 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462010485 homodimer interface [polypeptide binding]; other site 645462010486 catalytic residue [active] 645462010487 B3/4 domain; Region: B3_4; cl19243 645462010488 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 645462010489 putative FMN binding site [chemical binding]; other site 645462010490 Predicted transcriptional regulators [Transcription]; Region: COG1733 645462010491 DJ-1 family protein; Region: not_thiJ; TIGR01383 645462010492 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 645462010493 conserved cys residue [active] 645462010494 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 645462010495 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 645462010496 ABC transporter; Region: ABC_tran_2; pfam12848 645462010497 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 645462010498 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462010499 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 645462010500 active site 645462010501 phosphorylation site [posttranslational modification] 645462010502 intermolecular recognition site; other site 645462010503 dimerization interface [polypeptide binding]; other site 645462010504 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 645462010505 DNA binding site [nucleotide binding] 645462010506 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 645462010507 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 645462010508 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 645462010509 ABC-2 type transporter; Region: ABC2_membrane; cl17235 645462010510 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 645462010511 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 645462010512 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462010513 Walker A/P-loop; other site 645462010514 ATP binding site [chemical binding]; other site 645462010515 Q-loop/lid; other site 645462010516 ABC transporter signature motif; other site 645462010517 Walker B; other site 645462010518 D-loop; other site 645462010519 H-loop/switch region; other site 645462010520 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 645462010521 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 645462010522 metal binding site [ion binding]; metal-binding site 645462010523 active site 645462010524 I-site; other site 645462010525 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 645462010526 GTPase RsgA; Reviewed; Region: PRK01889 645462010527 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 645462010528 RNA binding site [nucleotide binding]; other site 645462010529 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 645462010530 GTPase/Zn-binding domain interface [polypeptide binding]; other site 645462010531 GTP/Mg2+ binding site [chemical binding]; other site 645462010532 G4 box; other site 645462010533 G5 box; other site 645462010534 G1 box; other site 645462010535 Switch I region; other site 645462010536 G2 box; other site 645462010537 G3 box; other site 645462010538 Switch II region; other site 645462010539 RNHCP domain; Region: RNHCP; pfam12647 645462010540 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 645462010541 TRAM domain; Region: TRAM; cl01282 645462010542 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 645462010543 S-adenosylmethionine binding site [chemical binding]; other site 645462010544 pyruvate kinase; Provisional; Region: PRK06354 645462010545 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 645462010546 domain interfaces; other site 645462010547 active site 645462010548 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; cl17700 645462010549 6-phosphofructokinase; Provisional; Region: PRK03202 645462010550 active site 645462010551 ADP/pyrophosphate binding site [chemical binding]; other site 645462010552 dimerization interface [polypeptide binding]; other site 645462010553 allosteric effector site; other site 645462010554 fructose-1,6-bisphosphate binding site; other site 645462010555 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 645462010556 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 645462010557 active site 645462010558 PHP Thumb interface [polypeptide binding]; other site 645462010559 metal binding site [ion binding]; metal-binding site 645462010560 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 645462010561 Helix-hairpin-helix motif; Region: HHH_6; pfam14579 645462010562 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 645462010563 generic binding surface II; other site 645462010564 generic binding surface I; other site 645462010565 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 645462010566 WhiA N-terminal LAGLIDADG-like domain; Region: WhiA_N; pfam10298 645462010567 WhiA LAGLIDADG-like domain; Region: LAGLIDADG_WhiA; pfam14527 645462010568 WhiA C-terminal HTH domain; Region: HTH_WhiA; pfam02650 645462010569 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 645462010570 active site 645462010571 Ap6A binding site [chemical binding]; other site 645462010572 nudix motif; other site 645462010573 metal binding site [ion binding]; metal-binding site 645462010574 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 645462010575 phosphate binding site [ion binding]; other site 645462010576 putative substrate binding pocket [chemical binding]; other site 645462010577 dimer interface [polypeptide binding]; other site 645462010578 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 645462010579 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 645462010580 Histidinol phosphatase and related hydrolases of the PHP family [Amino acid transport and metabolism / General function prediction only]; Region: HIS2; COG1387 645462010581 active site 645462010582 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 645462010583 FAD binding domain; Region: FAD_binding_4; pfam01565 645462010584 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 645462010585 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 645462010586 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 645462010587 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 645462010588 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 645462010589 putative active site [active] 645462010590 catalytic site [active] 645462010591 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 645462010592 putative active site [active] 645462010593 catalytic site [active] 645462010594 Thioredoxin-like [2Fe-2S] ferredoxin; Region: 2Fe-2S_thioredx; pfam01257 645462010595 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 645462010596 putative dimer interface [polypeptide binding]; other site 645462010597 [2Fe-2S] cluster binding site [ion binding]; other site 645462010598 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 645462010599 dimer interface [polypeptide binding]; other site 645462010600 [2Fe-2S] cluster binding site [ion binding]; other site 645462010601 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 645462010602 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 645462010603 SLBB domain; Region: SLBB; pfam10531 645462010604 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 645462010605 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 645462010606 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 645462010607 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 645462010608 catalytic loop [active] 645462010609 iron binding site [ion binding]; other site 645462010610 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 645462010611 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 645462010612 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 645462010613 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 645462010614 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 645462010615 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 645462010616 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462010617 Walker A/P-loop; other site 645462010618 ATP binding site [chemical binding]; other site 645462010619 Q-loop/lid; other site 645462010620 ABC transporter signature motif; other site 645462010621 Walker B; other site 645462010622 D-loop; other site 645462010623 H-loop/switch region; other site 645462010624 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 645462010625 HPr kinase/phosphorylase; Provisional; Region: PRK05428 645462010626 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 645462010627 Hpr binding site; other site 645462010628 active site 645462010629 homohexamer subunit interaction site [polypeptide binding]; other site 645462010630 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 645462010631 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 645462010632 GIY-YIG motif/motif A; other site 645462010633 active site 645462010634 catalytic site [active] 645462010635 putative DNA binding site [nucleotide binding]; other site 645462010636 metal binding site [ion binding]; metal-binding site 645462010637 UvrB/uvrC motif; Region: UVR; pfam02151 645462010638 SPRY domain; Region: SPRY; cl02614 645462010639 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 645462010640 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 645462010641 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 645462010642 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 645462010643 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 645462010644 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 645462010645 excinuclease ABC subunit B; Provisional; Region: PRK05298 645462010646 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 645462010647 ATP binding site [chemical binding]; other site 645462010648 Bifunctional transglycosylase second domain; Region: UB2H; pfam14814 645462010649 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 645462010650 nucleotide binding region [chemical binding]; other site 645462010651 ATP-binding site [chemical binding]; other site 645462010652 Ultra-violet resistance protein B; Region: UvrB; pfam12344 645462010653 UvrB/uvrC motif; Region: UVR; pfam02151 645462010654 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 645462010655 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 645462010656 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 645462010657 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 645462010658 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 645462010659 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 645462010660 dimer interface [polypeptide binding]; other site 645462010661 conserved gate region; other site 645462010662 putative PBP binding loops; other site 645462010663 ABC-ATPase subunit interface; other site 645462010664 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 645462010665 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 645462010666 dimer interface [polypeptide binding]; other site 645462010667 conserved gate region; other site 645462010668 putative PBP binding loops; other site 645462010669 ABC-ATPase subunit interface; other site 645462010670 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 645462010671 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 645462010672 Walker A/P-loop; other site 645462010673 ATP binding site [chemical binding]; other site 645462010674 Q-loop/lid; other site 645462010675 ABC transporter signature motif; other site 645462010676 Walker B; other site 645462010677 D-loop; other site 645462010678 H-loop/switch region; other site 645462010679 precorrin-2 dehydrogenase; Reviewed; Region: PRK06718 645462010680 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 645462010681 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 645462010682 dimer interface [polypeptide binding]; other site 645462010683 active site 645462010684 Schiff base residues; other site 645462010685 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 645462010686 active site 645462010687 SAM binding site [chemical binding]; other site 645462010688 homodimer interface [polypeptide binding]; other site 645462010689 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 645462010690 active site 645462010691 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 645462010692 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 645462010693 domain interfaces; other site 645462010694 active site 645462010695 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 645462010696 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 645462010697 active site 645462010698 C-terminal domain interface [polypeptide binding]; other site 645462010699 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 645462010700 active site 645462010701 N-terminal domain interface [polypeptide binding]; other site 645462010702 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 645462010703 active site 645462010704 SAM binding site [chemical binding]; other site 645462010705 homodimer interface [polypeptide binding]; other site 645462010706 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 645462010707 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 645462010708 active site 645462010709 SAM binding site [chemical binding]; other site 645462010710 homodimer interface [polypeptide binding]; other site 645462010711 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 645462010712 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 645462010713 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 645462010714 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 645462010715 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 645462010716 active site 645462010717 SAM binding site [chemical binding]; other site 645462010718 homodimer interface [polypeptide binding]; other site 645462010719 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 645462010720 S-adenosylmethionine binding site [chemical binding]; other site 645462010721 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 645462010722 active site 645462010723 putative homodimer interface [polypeptide binding]; other site 645462010724 SAM binding site [chemical binding]; other site 645462010725 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 645462010726 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; PRK08286 645462010727 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 645462010728 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 645462010729 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 645462010730 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 645462010731 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 645462010732 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462010733 homodimer interface [polypeptide binding]; other site 645462010734 catalytic residue [active] 645462010735 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 645462010736 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 645462010737 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 645462010738 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 645462010739 catalytic triad [active] 645462010740 cobyric acid synthase; Provisional; Region: PRK00784 645462010741 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 645462010742 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 645462010743 catalytic triad [active] 645462010744 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 645462010745 catalytic core [active] 645462010746 cobalamin synthase; Reviewed; Region: cobS; PRK00235 645462010747 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 645462010748 homotrimer interface [polypeptide binding]; other site 645462010749 Walker A motif; other site 645462010750 GTP binding site [chemical binding]; other site 645462010751 Walker B motif; other site 645462010752 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 645462010753 putative dimer interface [polypeptide binding]; other site 645462010754 active site pocket [active] 645462010755 putative cataytic base [active] 645462010756 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 645462010757 active site 645462010758 catalytic residues [active] 645462010759 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 645462010760 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 645462010761 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462010762 homodimer interface [polypeptide binding]; other site 645462010763 catalytic residue [active] 645462010764 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 645462010765 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 645462010766 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 645462010767 active site 645462010768 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 645462010769 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 645462010770 active site 645462010771 P-loop; other site 645462010772 phosphorylation site [posttranslational modification] 645462010773 methionine cluster; other site 645462010774 PTS system, Lactose/Cellobiose specific IIA subunit; Region: PTS_IIA; pfam02255 645462010775 active site 645462010776 phosphorylation site [posttranslational modification] 645462010777 metal binding site [ion binding]; metal-binding site 645462010778 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 645462010779 oligomer interface [polypeptide binding]; other site 645462010780 active site 645462010781 metal binding site [ion binding]; metal-binding site 645462010782 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 645462010783 HTH domain; Region: HTH_11; pfam08279 645462010784 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399; cl19827 645462010785 PRD domain; Region: PRD; pfam00874 645462010786 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 645462010787 active site 645462010788 P-loop; other site 645462010789 phosphorylation site [posttranslational modification] 645462010790 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 645462010791 active site 645462010792 phosphorylation site [posttranslational modification] 645462010793 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 645462010794 intersubunit interface [polypeptide binding]; other site 645462010795 active site 645462010796 zinc binding site [ion binding]; other site 645462010797 Na+ binding site [ion binding]; other site 645462010798 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 645462010799 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 645462010800 dimer interface [polypeptide binding]; other site 645462010801 active site 645462010802 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 645462010803 putative active site [active] 645462010804 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 645462010805 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 645462010806 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 645462010807 putative substrate binding site [chemical binding]; other site 645462010808 putative ATP binding site [chemical binding]; other site 645462010809 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 645462010810 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 645462010811 DNA-binding site [nucleotide binding]; DNA binding site 645462010812 UTRA domain; Region: UTRA; pfam07702 645462010813 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 645462010814 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 645462010815 active site 645462010816 dimer interface [polypeptide binding]; other site 645462010817 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 645462010818 Transposase, Mutator family; Region: Transposase_mut; cl19537 645462010819 Putative amidase domain; Region: Amidase_6; pfam12671 645462010820 Fic family protein [Function unknown]; Region: COG3177 645462010821 Fic/DOC family; Region: Fic; pfam02661 645462010822 transcriptional regulator EutR; Provisional; Region: PRK10130 645462010823 multiple promoter invertase; Provisional; Region: mpi; PRK13413 645462010824 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 645462010825 catalytic residues [active] 645462010826 catalytic nucleophile [active] 645462010827 Presynaptic Site I dimer interface [polypeptide binding]; other site 645462010828 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 645462010829 Synaptic Flat tetramer interface [polypeptide binding]; other site 645462010830 Synaptic Site I dimer interface [polypeptide binding]; other site 645462010831 DNA binding site [nucleotide binding] 645462010832 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 645462010833 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 645462010834 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 645462010835 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 645462010836 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 645462010837 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 645462010838 DNA binding residues [nucleotide binding] 645462010839 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 645462010840 Transposase, Mutator family; Region: Transposase_mut; cl19537 645462010841 C-terminal peptidase (prc); Region: prc; TIGR00225 645462010842 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 645462010843 protein binding site [polypeptide binding]; other site 645462010844 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 645462010845 Catalytic dyad [active] 645462010846 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 645462010847 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 645462010848 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 645462010849 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 645462010850 PYR/PP interface [polypeptide binding]; other site 645462010851 dimer interface [polypeptide binding]; other site 645462010852 TPP binding site [chemical binding]; other site 645462010853 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 645462010854 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 645462010855 TPP-binding site [chemical binding]; other site 645462010856 dimer interface [polypeptide binding]; other site 645462010857 PemK-like protein; Region: PemK; pfam02452 645462010858 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 645462010859 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 645462010860 alanine racemase; Reviewed; Region: alr; PRK00053 645462010861 active site 645462010862 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 645462010863 dimer interface [polypeptide binding]; other site 645462010864 substrate binding site [chemical binding]; other site 645462010865 catalytic residues [active] 645462010866 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 645462010867 FOG: CBS domain [General function prediction only]; Region: COG0517 645462010868 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 645462010869 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 645462010870 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 645462010871 gamma subunit interface [polypeptide binding]; other site 645462010872 epsilon subunit interface [polypeptide binding]; other site 645462010873 LBP interface [polypeptide binding]; other site 645462010874 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 645462010875 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 645462010876 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 645462010877 alpha subunit interaction interface [polypeptide binding]; other site 645462010878 Walker A motif; other site 645462010879 ATP binding site [chemical binding]; other site 645462010880 Walker B motif; other site 645462010881 inhibitor binding site; inhibition site 645462010882 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 645462010883 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 645462010884 core domain interface [polypeptide binding]; other site 645462010885 delta subunit interface [polypeptide binding]; other site 645462010886 epsilon subunit interface [polypeptide binding]; other site 645462010887 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 645462010888 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 645462010889 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 645462010890 beta subunit interaction interface [polypeptide binding]; other site 645462010891 Walker A motif; other site 645462010892 ATP binding site [chemical binding]; other site 645462010893 Walker B motif; other site 645462010894 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 645462010895 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 645462010896 F0F1 ATP synthase subunit B; Provisional; Region: PRK13461 645462010897 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 645462010898 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 645462010899 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 645462010900 ATP synthase I chain; Region: ATP_synt_I; pfam03899 645462010901 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 645462010902 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 645462010903 catalytic motif [active] 645462010904 Zn binding site [ion binding]; other site 645462010905 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 645462010906 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 645462010907 active site 645462010908 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 645462010909 Low molecular weight phosphatase family; Region: LMWPc; cd00115 645462010910 active site 645462010911 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 645462010912 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 645462010913 ZIP Zinc transporter; Region: Zip; cl00437 645462010914 peptide chain release factor 1; Validated; Region: prfA; PRK00591 645462010915 This domain is found in peptide chain release factors; Region: PCRF; smart00937 645462010916 RF-1 domain; Region: RF-1; pfam00472 645462010917 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 645462010918 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 645462010919 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 645462010920 S-adenosylmethionine binding site [chemical binding]; other site 645462010921 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 645462010922 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 645462010923 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 645462010924 WXG100 protein secretion system (Wss), protein YukC; Region: YukC; cl01868 645462010925 transcription termination factor Rho; Provisional; Region: PRK12608 645462010926 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 645462010927 RNA binding site [nucleotide binding]; other site 645462010928 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 645462010929 multimer interface [polypeptide binding]; other site 645462010930 Walker A motif; other site 645462010931 ATP binding site [chemical binding]; other site 645462010932 Walker B motif; other site 645462010933 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 645462010934 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 645462010935 active site 645462010936 tetramer interface; other site 645462010937 oligoendopeptidase F; Region: pepF; TIGR00181 645462010938 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 645462010939 active site 645462010940 Zn binding site [ion binding]; other site 645462010941 stage II sporulation protein E; Region: spore_II_E; TIGR02865 645462010942 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 645462010943 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 645462010944 exopolyphosphatase; Region: exo_poly_only; TIGR03706 645462010945 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 645462010946 Septum formation initiator; Region: DivIC; cl17659 645462010947 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; pfam09578 645462010948 YabP family; Region: YabP; cl06766 645462010949 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 645462010950 RNA binding surface [nucleotide binding]; other site 645462010951 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 645462010952 IHF - DNA interface [nucleotide binding]; other site 645462010953 IHF dimer interface [polypeptide binding]; other site 645462010954 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 645462010955 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cl00304 645462010956 active site 645462010957 homodimer interface [polypeptide binding]; other site 645462010958 SAM binding site [chemical binding]; other site 645462010959 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 645462010960 homodimer interface [polypeptide binding]; other site 645462010961 metal binding site [ion binding]; metal-binding site 645462010962 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 645462010963 homodimer interface [polypeptide binding]; other site 645462010964 active site 645462010965 putative chemical substrate binding site [chemical binding]; other site 645462010966 metal binding site [ion binding]; metal-binding site 645462010967 stage V sporulation protein B; Region: spore_V_B; TIGR02900 645462010968 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 645462010969 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 645462010970 stage V sporulation protein T; Region: spore_V_T; TIGR02851 645462010971 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK02998 645462010972 SurA N-terminal domain; Region: SurA_N_3; cl07813 645462010973 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 645462010974 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 645462010975 Bifunctional transglycosylase second domain; Region: UB2H; pfam14814 645462010976 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 645462010977 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 645462010978 ATP binding site [chemical binding]; other site 645462010979 putative Mg++ binding site [ion binding]; other site 645462010980 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 645462010981 nucleotide binding region [chemical binding]; other site 645462010982 ATP-binding site [chemical binding]; other site 645462010983 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 645462010984 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 645462010985 putative active site [active] 645462010986 catalytic residue [active] 645462010987 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 645462010988 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 645462010989 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 645462010990 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 645462010991 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 645462010992 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 645462010993 Walker A motif; other site 645462010994 ATP binding site [chemical binding]; other site 645462010995 Walker B motif; other site 645462010996 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 645462010997 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 645462010998 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 645462010999 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 645462011000 Fimbrial assembly protein (PilN); Region: PilN; cl19830 645462011001 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 645462011002 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 645462011003 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 645462011004 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 645462011005 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 645462011006 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 645462011007 Walker A motif; other site 645462011008 ATP binding site [chemical binding]; other site 645462011009 Walker B motif; other site 645462011010 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 645462011011 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 645462011012 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 645462011013 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 645462011014 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 645462011015 active site 645462011016 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 645462011017 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 645462011018 Substrate binding site; other site 645462011019 Mg++ binding site; other site 645462011020 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 645462011021 active site 645462011022 substrate binding site [chemical binding]; other site 645462011023 CoA binding site [chemical binding]; other site 645462011024 regulatory protein SpoVG; Reviewed; Region: PRK13259 645462011025 pur operon repressor; Provisional; Region: PRK09213 645462011026 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 645462011027 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 645462011028 active site 645462011029 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 645462011030 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 645462011031 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 645462011032 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 645462011033 Dynein, heavy chain [Cytoskeleton]; Region: DYN1; COG5245 645462011034 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 645462011035 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 645462011036 peptidase T-like protein; Region: PepT-like; TIGR01883 645462011037 metal binding site [ion binding]; metal-binding site 645462011038 putative dimer interface [polypeptide binding]; other site 645462011039 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 645462011040 S-adenosylmethionine binding site [chemical binding]; other site 645462011041 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 645462011042 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 645462011043 putative active site [active] 645462011044 putative metal binding site [ion binding]; other site 645462011045 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 645462011046 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 645462011047 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 645462011048 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 645462011049 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 645462011050 dimer interface [polypeptide binding]; other site 645462011051 conserved gate region; other site 645462011052 putative PBP binding loops; other site 645462011053 ABC-ATPase subunit interface; other site 645462011054 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 645462011055 dimer interface [polypeptide binding]; other site 645462011056 conserved gate region; other site 645462011057 putative PBP binding loops; other site 645462011058 ABC-ATPase subunit interface; other site 645462011059 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 645462011060 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462011061 Walker A/P-loop; other site 645462011062 ATP binding site [chemical binding]; other site 645462011063 Q-loop/lid; other site 645462011064 ABC transporter signature motif; other site 645462011065 Walker B; other site 645462011066 D-loop; other site 645462011067 H-loop/switch region; other site 645462011068 TOBE domain; Region: TOBE_2; pfam08402 645462011069 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 645462011070 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 645462011071 active site 645462011072 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 645462011073 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 645462011074 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 645462011075 active site 645462011076 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 645462011077 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462011078 Walker A/P-loop; other site 645462011079 ATP binding site [chemical binding]; other site 645462011080 Q-loop/lid; other site 645462011081 ABC transporter signature motif; other site 645462011082 Walker B; other site 645462011083 D-loop; other site 645462011084 H-loop/switch region; other site 645462011085 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 645462011086 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 645462011087 Walker A/P-loop; other site 645462011088 ATP binding site [chemical binding]; other site 645462011089 Q-loop/lid; other site 645462011090 ABC transporter signature motif; other site 645462011091 Walker B; other site 645462011092 D-loop; other site 645462011093 H-loop/switch region; other site 645462011094 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 645462011095 Phosphonate metabolizm protein PhnJ; Region: PhnJ; pfam06007 645462011096 Bacterial phosphonate metabolizm protein (PhnI); Region: PhnI; pfam05861 645462011097 phosphonate C-P lyase system protein PhnH; Region: PhnH_redo; TIGR03292 645462011098 phosphonate C-P lyase system protein PhnG; Region: PhnG_redo; TIGR03293 645462011099 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 645462011100 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 645462011101 active site 645462011102 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 645462011103 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 645462011104 active site 645462011105 HIGH motif; other site 645462011106 KMSKS motif; other site 645462011107 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 645462011108 tRNA binding surface [nucleotide binding]; other site 645462011109 anticodon binding site; other site 645462011110 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 645462011111 dimer interface [polypeptide binding]; other site 645462011112 putative tRNA-binding site [nucleotide binding]; other site 645462011113 Uncharacterized membrane protein [Function unknown]; Region: SpmB; cl17667 645462011114 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 645462011115 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 645462011116 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 645462011117 active site 645462011118 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 645462011119 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 645462011120 putative DNA binding site [nucleotide binding]; other site 645462011121 putative Zn2+ binding site [ion binding]; other site 645462011122 AsnC family; Region: AsnC_trans_reg; pfam01037 645462011123 HD domain; Region: HD; pfam01966 645462011124 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 645462011125 putative SAM binding site [chemical binding]; other site 645462011126 putative homodimer interface [polypeptide binding]; other site 645462011127 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 645462011128 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 645462011129 S-adenosylmethionine binding site [chemical binding]; other site 645462011130 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 645462011131 DNA polymerase III subunit delta'; Validated; Region: PRK05564 645462011132 DNA polymerase III subunit delta'; Validated; Region: PRK08485 645462011133 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 645462011134 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 645462011135 TMP-binding site; other site 645462011136 ATP-binding site [chemical binding]; other site 645462011137 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 645462011138 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 645462011139 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 645462011140 catalytic residue [active] 645462011141 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 645462011142 Domain of unknown function (DUF378); Region: DUF378; pfam04070 645462011143 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 645462011144 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 645462011145 dimer interface [polypeptide binding]; other site 645462011146 putative anticodon binding site; other site 645462011147 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 645462011148 motif 1; other site 645462011149 active site 645462011150 motif 2; other site 645462011151 motif 3; other site 645462011152 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 645462011153 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 645462011154 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 645462011155 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 645462011156 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 645462011157 FMN binding site [chemical binding]; other site 645462011158 active site 645462011159 catalytic residues [active] 645462011160 substrate binding site [chemical binding]; other site 645462011161 pantothenate kinase; Reviewed; Region: PRK13318 645462011162 Predicted membrane protein [Function unknown]; Region: COG4684 645462011163 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 645462011164 putative active site pocket [active] 645462011165 cleavage site 645462011166 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 645462011167 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 645462011168 putative Zn2+ binding site [ion binding]; other site 645462011169 putative DNA binding site [nucleotide binding]; other site 645462011170 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 645462011171 FtsH Extracellular; Region: FtsH_ext; pfam06480 645462011172 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 645462011173 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 645462011174 Walker A motif; other site 645462011175 ATP binding site [chemical binding]; other site 645462011176 Walker B motif; other site 645462011177 arginine finger; other site 645462011178 Peptidase family M41; Region: Peptidase_M41; pfam01434 645462011179 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 645462011180 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 645462011181 Ligand Binding Site [chemical binding]; other site 645462011182 TilS substrate C-terminal domain; Region: TilS_C; smart00977 645462011183 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 645462011184 glutamate racemase; Provisional; Region: PRK00865 645462011185 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 645462011186 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 645462011187 Transcriptional regulators [Transcription]; Region: GntR; COG1802 645462011188 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 645462011189 DNA-binding site [nucleotide binding]; DNA binding site 645462011190 FCD domain; Region: FCD; pfam07729 645462011191 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 645462011192 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 645462011193 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 645462011194 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 645462011195 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 645462011196 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 645462011197 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 645462011198 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 645462011199 YabG peptidase U57; Region: Peptidase_U57; pfam05582 645462011200 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 645462011201 active site 645462011202 dimer interface [polypeptide binding]; other site 645462011203 hypothetical protein; Provisional; Region: PRK05590 645462011204 UPF0489 domain; Region: UPF0489; pfam12640 645462011205 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 645462011206 Na binding site [ion binding]; other site 645462011207 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 645462011208 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 645462011209 putative substrate translocation pore; other site 645462011210 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 645462011211 homodimer interface [polypeptide binding]; other site 645462011212 substrate-cofactor binding pocket; other site 645462011213 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462011214 catalytic residue [active] 645462011215 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 645462011216 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 645462011217 catalytic residues [active] 645462011218 catalytic nucleophile [active] 645462011219 Presynaptic Site I dimer interface [polypeptide binding]; other site 645462011220 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 645462011221 Synaptic Flat tetramer interface [polypeptide binding]; other site 645462011222 Synaptic Site I dimer interface [polypeptide binding]; other site 645462011223 DNA binding site [nucleotide binding] 645462011224 Domain of unknown function (DUF1413); Region: DUF1413; pfam07205 645462011225 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 645462011226 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 645462011227 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 645462011228 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 645462011229 S-adenosylmethionine binding site [chemical binding]; other site 645462011230 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 645462011231 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 645462011232 active site 645462011233 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 645462011234 DNA binding residues [nucleotide binding] 645462011235 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 645462011236 drug binding residues [chemical binding]; other site 645462011237 dimer interface [polypeptide binding]; other site 645462011238 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 645462011239 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 645462011240 FtsX-like permease family; Region: FtsX; pfam02687 645462011241 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 645462011242 FtsX-like permease family; Region: FtsX; pfam02687 645462011243 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 645462011244 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 645462011245 Walker A/P-loop; other site 645462011246 ATP binding site [chemical binding]; other site 645462011247 Q-loop/lid; other site 645462011248 ABC transporter signature motif; other site 645462011249 Walker B; other site 645462011250 D-loop; other site 645462011251 H-loop/switch region; other site 645462011252 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 645462011253 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 645462011254 dimer interface [polypeptide binding]; other site 645462011255 phosphorylation site [posttranslational modification] 645462011256 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 645462011257 ATP binding site [chemical binding]; other site 645462011258 Mg2+ binding site [ion binding]; other site 645462011259 G-X-G motif; other site 645462011260 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462011261 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 645462011262 active site 645462011263 phosphorylation site [posttranslational modification] 645462011264 intermolecular recognition site; other site 645462011265 dimerization interface [polypeptide binding]; other site 645462011266 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 645462011267 DNA binding site [nucleotide binding] 645462011268 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 645462011269 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 645462011270 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 645462011271 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 645462011272 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 645462011273 ATP-grasp domain; Region: ATP-grasp_4; cl17255 645462011274 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 645462011275 IMP binding site; other site 645462011276 dimer interface [polypeptide binding]; other site 645462011277 interdomain contacts; other site 645462011278 partial ornithine binding site; other site 645462011279 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 645462011280 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 645462011281 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 645462011282 catalytic site [active] 645462011283 subunit interface [polypeptide binding]; other site 645462011284 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 645462011285 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 645462011286 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 645462011287 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 645462011288 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 645462011289 ATP-grasp domain; Region: ATP-grasp_4; cl17255 645462011290 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 645462011291 IMP binding site; other site 645462011292 dimer interface [polypeptide binding]; other site 645462011293 interdomain contacts; other site 645462011294 partial ornithine binding site; other site 645462011295 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 645462011296 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 645462011297 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 645462011298 catalytic site [active] 645462011299 subunit interface [polypeptide binding]; other site 645462011300 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 645462011301 active site 645462011302 dimer interface [polypeptide binding]; other site 645462011303 Protein of unknown function (DUF1847); Region: DUF1847; pfam08901 645462011304 Nitroreductase family; Region: Nitroreductase; pfam00881 645462011305 FMN binding site [chemical binding]; other site 645462011306 dimer interface [polypeptide binding]; other site 645462011307 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 645462011308 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 645462011309 Homocysteine S-methyltransferase; Region: S-methyl_trans; cl14105 645462011310 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 645462011311 substrate binding pocket [chemical binding]; other site 645462011312 dimer interface [polypeptide binding]; other site 645462011313 inhibitor binding site; inhibition site 645462011314 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 645462011315 B12 binding site [chemical binding]; other site 645462011316 cobalt ligand [ion binding]; other site 645462011317 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 645462011318 S-ribosylhomocysteinase; Provisional; Region: PRK02260 645462011319 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 645462011320 dimer interface [polypeptide binding]; other site 645462011321 phosphorylation site [posttranslational modification] 645462011322 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 645462011323 ATP binding site [chemical binding]; other site 645462011324 Mg2+ binding site [ion binding]; other site 645462011325 G-X-G motif; other site 645462011326 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 645462011327 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 645462011328 active site 645462011329 phosphorylation site [posttranslational modification] 645462011330 intermolecular recognition site; other site 645462011331 dimerization interface [polypeptide binding]; other site 645462011332 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 645462011333 DNA binding site [nucleotide binding] 645462011334 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 645462011335 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 645462011336 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 645462011337 Ligand Binding Site [chemical binding]; other site 645462011338 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 645462011339 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 645462011340 putative active site [active] 645462011341 putative metal binding site [ion binding]; other site 645462011342 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 645462011343 atypical (a) SDRs, subgroup 1; Region: SDR_a1; cd05265 645462011344 putative NAD(P) binding site [chemical binding]; other site 645462011345 active site 645462011346 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 645462011347 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 645462011348 active site 645462011349 motif I; other site 645462011350 motif II; other site 645462011351 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 645462011352 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 645462011353 dihydroorotase; Provisional; Region: PRK09237 645462011354 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 645462011355 active site 645462011356 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 645462011357 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 645462011358 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462011359 Walker A/P-loop; other site 645462011360 ATP binding site [chemical binding]; other site 645462011361 Q-loop/lid; other site 645462011362 ABC transporter signature motif; other site 645462011363 Walker B; other site 645462011364 D-loop; other site 645462011365 H-loop/switch region; other site 645462011366 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 645462011367 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 645462011368 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 645462011369 MATE family multidrug exporter; Provisional; Region: PRK10189 645462011370 Staygreen protein; Region: Staygreen; pfam12638 645462011371 Protein of unknown function, DUF488; Region: DUF488; pfam04343 645462011372 Cna protein B-type domain; Region: Cna_B; pfam05738 645462011373 Cna protein B-type domain; Region: Cna_B; pfam05738 645462011374 Bacterial protein of unknown function (DUF961); Region: DUF961; pfam06125 645462011375 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 645462011376 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 645462011377 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 645462011378 YcxB-like protein; Region: YcxB; pfam14317 645462011379 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 645462011380 Walker A motif; other site 645462011381 ATP binding site [chemical binding]; other site 645462011382 Walker B motif; other site 645462011383 arginine finger; other site 645462011384 Replication initiation factor; Region: Rep_trans; pfam02486 645462011385 Chloramphenicol acetyltransferase; Region: CAT; cl02008 645462011386 Antirestriction protein (ArdA); Region: ArdA; cl01953 645462011387 Antirestriction protein (ArdA); Region: ArdA; pfam07275 645462011388 AAA-like domain; Region: AAA_10; pfam12846 645462011389 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 645462011390 Histone H1-like nucleoprotein HC2; Region: HC2; cl19298 645462011391 Lysozyme-like; Region: Lysozyme_like; pfam13702 645462011392 NlpC/P60 family; Region: NLPC_P60; pfam00877 645462011393 Conjugative transposon protein TcpC; Region: TpcC; pfam12642 645462011394 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 645462011395 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 645462011396 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 645462011397 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 645462011398 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 645462011399 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 645462011400 Walker A/P-loop; other site 645462011401 ATP binding site [chemical binding]; other site 645462011402 Q-loop/lid; other site 645462011403 ABC transporter signature motif; other site 645462011404 Walker B; other site 645462011405 D-loop; other site 645462011406 H-loop/switch region; other site 645462011407 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 645462011408 FlhB HrpN YscU SpaS Family; Region: Bac_export_2; cl19167 645462011409 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 645462011410 DNA binding domain of tn916 integrase; Region: Integrase_DNA; pfam02920 645462011411 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 645462011412 active site 645462011413 DNA binding site [nucleotide binding] 645462011414 Int/Topo IB signature motif; other site 645462011415 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 645462011416 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 645462011417 DNA binding residues [nucleotide binding] 645462011418 drug binding residues [chemical binding]; other site 645462011419 dimer interface [polypeptide binding]; other site 645462011420 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 645462011421 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 645462011422 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 645462011423 Probable transposase; Region: OrfB_IS605; pfam01385 645462011424 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 645462011425 Predicted Zn-dependent protease (DUF2268); Region: DUF2268; pfam10026 645462011426 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 645462011427 dimer interface [polypeptide binding]; other site 645462011428 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 645462011429 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 645462011430 Coenzyme A binding pocket [chemical binding]; other site 645462011431 YmaF family; Region: YmaF; pfam12788 645462011432 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 645462011433 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 645462011434 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 645462011435 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 645462011436 PhnA protein; Region: PhnA; pfam03831 645462011437 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 645462011438 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 645462011439 Walker A/P-loop; other site 645462011440 ATP binding site [chemical binding]; other site 645462011441 Q-loop/lid; other site 645462011442 ABC transporter signature motif; other site 645462011443 Walker B; other site 645462011444 D-loop; other site 645462011445 H-loop/switch region; other site 645462011446 bacteriocin-associated integral membrane (putative immunity) protein; Region: bact_immun_7tm; TIGR01654 645462011447 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 645462011448 Entner-Doudoroff aldolase; Region: eda; TIGR01182 645462011449 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 645462011450 active site 645462011451 intersubunit interface [polypeptide binding]; other site 645462011452 catalytic residue [active] 645462011453 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 645462011454 inhibitor site; inhibition site 645462011455 active site 645462011456 dimer interface [polypeptide binding]; other site 645462011457 catalytic residue [active] 645462011458 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 645462011459 putative active site [active] 645462011460 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: PRK12997 645462011461 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 645462011462 active site 645462011463 P-loop; other site 645462011464 phosphorylation site [posttranslational modification] 645462011465 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 645462011466 Mga helix-turn-helix domain; Region: Mga; pfam05043 645462011467 PRD domain; Region: PRD; pfam00874 645462011468 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 645462011469 active site 645462011470 P-loop; other site 645462011471 phosphorylation site [posttranslational modification] 645462011472 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 645462011473 active site 645462011474 phosphorylation site [posttranslational modification] 645462011475 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 645462011476 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 645462011477 Uncharacterized conserved protein [Function unknown]; Region: COG5276 645462011478 Transcriptional regulator [Transcription]; Region: LysR; COG0583 645462011479 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 645462011480 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 645462011481 dimerization interface [polypeptide binding]; other site 645462011482 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 645462011483 substrate binding site [chemical binding]; other site 645462011484 ATP binding site [chemical binding]; other site 645462011485 conserved hypothetical protein EF_0839/AHA_3917; Region: EF_0839; TIGR03581 645462011486 uncharacterized pyridoxal phosphate-dependent enzyme; Region: selA_rel; TIGR01437 645462011487 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 645462011488 catalytic residue [active] 645462011489 probable amidohydrolase EF_0837/AHA_3915; Region: EF_0837; TIGR03583 645462011490 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 645462011491 active site 645462011492 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 645462011493 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 645462011494 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 645462011495 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 645462011496 DNA-binding site [nucleotide binding]; DNA binding site 645462011497 UTRA domain; Region: UTRA; cl17743 645462011498 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 645462011499 active site 645462011500 methionine cluster; other site 645462011501 phosphorylation site [posttranslational modification] 645462011502 metal binding site [ion binding]; metal-binding site 645462011503 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 645462011504 active site 645462011505 P-loop; other site 645462011506 phosphorylation site [posttranslational modification] 645462011507 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 645462011508 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 645462011509 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 645462011510 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 645462011511 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 645462011512 Zn binding site [ion binding]; other site 645462011513 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 645462011514 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 645462011515 DNA replication protein DnaC; Validated; Region: PRK06835 645462011516 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 645462011517 Walker A motif; other site 645462011518 ATP binding site [chemical binding]; other site 645462011519 Walker B motif; other site 645462011520 arginine finger; other site 645462011521 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 645462011522 GDP-binding site [chemical binding]; other site 645462011523 ACT binding site; other site 645462011524 IMP binding site; other site 645462011525 replicative DNA helicase; Region: DnaB; TIGR00665 645462011526 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 645462011527 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 645462011528 Walker A motif; other site 645462011529 ATP binding site [chemical binding]; other site 645462011530 Walker B motif; other site 645462011531 DNA binding loops [nucleotide binding] 645462011532 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 645462011533 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 645462011534 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 645462011535 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 645462011536 DHH family; Region: DHH; pfam01368 645462011537 DHHA1 domain; Region: DHHA1; pfam02272 645462011538 Predicted membrane protein (DUF2232); Region: DUF2232; pfam09991 645462011539 MazG-like family; Region: MazG-like; pfam12643 645462011540 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 645462011541 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 645462011542 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 645462011543 dimer interface [polypeptide binding]; other site 645462011544 ssDNA binding site [nucleotide binding]; other site 645462011545 tetramer (dimer of dimers) interface [polypeptide binding]; other site 645462011546 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 645462011547 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 645462011548 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 645462011549 pyridoxal 5'-phosphate binding site [chemical binding]; other site 645462011550 homodimer interface [polypeptide binding]; other site 645462011551 catalytic residue [active] 645462011552 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 645462011553 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 645462011554 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 645462011555 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 645462011556 CPxP motif; other site 645462011557 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 645462011558 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 645462011559 non-specific DNA binding site [nucleotide binding]; other site 645462011560 salt bridge; other site 645462011561 sequence-specific DNA binding site [nucleotide binding]; other site 645462011562 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 645462011563 binding surface 645462011564 TPR motif; other site 645462011565 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 645462011566 binding surface 645462011567 TPR motif; other site 645462011568 Tetratricopeptide repeat; Region: TPR_12; pfam13424 645462011569 Tetratricopeptide repeat; Region: TPR_12; pfam13424 645462011570 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 645462011571 binding surface 645462011572 TPR motif; other site 645462011573 Tetratricopeptide repeat; Region: TPR_12; pfam13424 645462011574 Sporulation and spore germination; Region: Germane; pfam10646 645462011575 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 645462011576 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 645462011577 catalytic residue [active] 645462011578 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 645462011579 ParB-like nuclease domain; Region: ParBc; pfam02195 645462011580 KorB domain; Region: KorB; pfam08535 645462011581 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 645462011582 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 645462011583 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 645462011584 P-loop; other site 645462011585 Magnesium ion binding site [ion binding]; other site 645462011586 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 645462011587 ParB-like nuclease domain; Region: ParB; smart00470 645462011588 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 645462011589 Methyltransferase domain; Region: Methyltransf_31; pfam13847 645462011590 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 645462011591 S-adenosylmethionine binding site [chemical binding]; other site 645462011592 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 645462011593 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 645462011594 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 645462011595 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 645462011596 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 645462011597 Protein of unknown function (DUF677); Region: DUF677; pfam05055 645462011598 trmE is a tRNA modification GTPase; Region: trmE; cd04164 645462011599 G1 box; other site 645462011600 GTP/Mg2+ binding site [chemical binding]; other site 645462011601 Switch I region; other site 645462011602 G2 box; other site 645462011603 Switch II region; other site 645462011604 G3 box; other site 645462011605 G4 box; other site 645462011606 G5 box; other site 645462011607 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 645462011608 Jag N-terminus; Region: Jag_N; pfam14804 645462011609 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 645462011610 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 645462011611 G-X-X-G motif; other site 645462011612 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 645462011613 RxxxH motif; other site 645462011614 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 645462011615 Haemolytic domain; Region: Haemolytic; pfam01809 645462011616 ribonuclease P; Reviewed; Region: rnpA; PRK00499 645462011617 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399