-- dump date 20140620_072152 -- class Genbank::misc_feature -- table misc_feature_note -- id note 889378000001 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 889378000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 889378000003 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 889378000004 Walker A motif; other site 889378000005 ATP binding site [chemical binding]; other site 889378000006 Walker B motif; other site 889378000007 arginine finger; other site 889378000008 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 889378000009 DnaA box-binding interface [nucleotide binding]; other site 889378000010 DNA polymerase III subunit beta; Provisional; Region: PRK14940 889378000011 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 889378000012 putative DNA binding surface [nucleotide binding]; other site 889378000013 dimer interface [polypeptide binding]; other site 889378000014 beta-clamp/clamp loader binding surface; other site 889378000015 beta-clamp/translesion DNA polymerase binding surface; other site 889378000016 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 889378000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 889378000018 Walker A/P-loop; other site 889378000019 ATP binding site [chemical binding]; other site 889378000020 Q-loop/lid; other site 889378000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 889378000022 ABC transporter signature motif; other site 889378000023 Walker B; other site 889378000024 D-loop; other site 889378000025 H-loop/switch region; other site 889378000026 Protein of unknown function (DUF721); Region: DUF721; pfam05258 889378000027 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 889378000028 Ribonuclease P; Region: Ribonuclease_P; pfam00825 889378000029 membrane protein insertase; Provisional; Region: PRK01318 889378000030 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 889378000031 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 889378000032 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 889378000033 G-X-X-G motif; other site 889378000034 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 889378000035 RxxxH motif; other site 889378000036 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 889378000037 lipoyl attachment site [posttranslational modification]; other site 889378000038 Adenosylhomocysteinase; Provisional; Region: PTZ00075 889378000039 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 889378000040 homotetramer interface [polypeptide binding]; other site 889378000041 ligand binding site [chemical binding]; other site 889378000042 catalytic site [active] 889378000043 NAD binding site [chemical binding]; other site 889378000044 S-adenosylmethionine synthetase; Validated; Region: PRK05250 889378000045 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 889378000046 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 889378000047 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 889378000048 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 889378000049 binding surface 889378000050 TPR motif; other site 889378000051 GAF domain; Region: GAF_3; pfam13492 889378000052 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 889378000053 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 889378000054 metal binding site [ion binding]; metal-binding site 889378000055 active site 889378000056 I-site; other site 889378000057 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 889378000058 putative ADP-binding pocket [chemical binding]; other site 889378000059 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 889378000060 Transposase, Mutator family; Region: Transposase_mut; pfam00872 889378000061 MULE transposase domain; Region: MULE; pfam10551 889378000062 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 889378000063 Fn3 associated; Region: Fn3_assoc; pfam13287 889378000064 CotH protein; Region: CotH; pfam08757 889378000065 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 889378000066 Leucine rich repeat; Region: LRR_8; pfam13855 889378000067 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 889378000068 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 889378000069 CotH protein; Region: CotH; pfam08757 889378000070 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 889378000071 CotH protein; Region: CotH; pfam08757 889378000072 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 889378000073 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 889378000074 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 889378000075 Ligand binding site; other site 889378000076 Putative Catalytic site; other site 889378000077 DXD motif; other site 889378000078 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 889378000079 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 889378000080 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 889378000081 NAD binding site [chemical binding]; other site 889378000082 substrate binding site [chemical binding]; other site 889378000083 homodimer interface [polypeptide binding]; other site 889378000084 active site 889378000085 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 889378000086 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 889378000087 substrate binding site; other site 889378000088 tetramer interface; other site 889378000089 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 889378000090 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 889378000091 inhibitor-cofactor binding pocket; inhibition site 889378000092 pyridoxal 5'-phosphate binding site [chemical binding]; other site 889378000093 catalytic residue [active] 889378000094 ATP-grasp domain; Region: ATP-grasp_4; cl17255 889378000095 colanic acid exporter; Provisional; Region: PRK10459 889378000096 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 889378000097 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 889378000098 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 889378000099 active site 889378000100 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 889378000101 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 889378000102 active site 889378000103 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 889378000104 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 889378000105 active site 889378000106 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 889378000107 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 889378000108 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 889378000109 AAA domain; Region: AAA_14; pfam13173 889378000110 Fic family protein [Function unknown]; Region: COG3177 889378000111 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 889378000112 Fic/DOC family; Region: Fic; pfam02661 889378000113 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 889378000114 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 889378000115 active site 889378000116 NTP binding site [chemical binding]; other site 889378000117 metal binding triad [ion binding]; metal-binding site 889378000118 antibiotic binding site [chemical binding]; other site 889378000119 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 889378000120 oligomeric interface; other site 889378000121 putative active site [active] 889378000122 homodimer interface [polypeptide binding]; other site 889378000123 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 889378000124 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 889378000125 active site 889378000126 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 889378000127 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 889378000128 active site 889378000129 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 889378000130 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 889378000131 active site 889378000132 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 889378000133 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 889378000134 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 889378000135 Walker A/P-loop; other site 889378000136 ATP binding site [chemical binding]; other site 889378000137 Q-loop/lid; other site 889378000138 ABC transporter signature motif; other site 889378000139 Walker B; other site 889378000140 D-loop; other site 889378000141 H-loop/switch region; other site 889378000142 Right handed beta helix region; Region: Beta_helix; pfam13229 889378000143 PIN domain; Region: PIN_3; pfam13470 889378000144 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 889378000145 putative ADP-binding pocket [chemical binding]; other site 889378000146 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 889378000147 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 889378000148 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 889378000149 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 889378000150 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 889378000151 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 889378000152 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 889378000153 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 889378000154 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 889378000155 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 889378000156 putative NAD(P) binding site [chemical binding]; other site 889378000157 active site 889378000158 putative substrate binding site [chemical binding]; other site 889378000159 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 889378000160 metal binding triad [ion binding]; metal-binding site 889378000161 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 889378000162 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 889378000163 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 889378000164 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 889378000165 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 889378000166 FtsX-like permease family; Region: FtsX; pfam02687 889378000167 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 889378000168 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 889378000169 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 889378000170 Mg++ binding site [ion binding]; other site 889378000171 putative catalytic motif [active] 889378000172 substrate binding site [chemical binding]; other site 889378000173 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 889378000174 SdiA-regulated; Region: SdiA-regulated; cd09971 889378000175 SdiA-regulated; Region: SdiA-regulated; pfam06977 889378000176 putative active site [active] 889378000177 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 889378000178 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 889378000179 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 889378000180 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 889378000181 CotH protein; Region: CotH; pfam08757 889378000182 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 889378000183 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 889378000184 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 889378000185 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 889378000186 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 889378000187 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 889378000188 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 889378000189 substrate binding pocket [chemical binding]; other site 889378000190 chain length determination region; other site 889378000191 substrate-Mg2+ binding site; other site 889378000192 catalytic residues [active] 889378000193 aspartate-rich region 1; other site 889378000194 active site lid residues [active] 889378000195 aspartate-rich region 2; other site 889378000196 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 889378000197 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 889378000198 Rhomboid family; Region: Rhomboid; pfam01694 889378000199 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 889378000200 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 889378000201 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 889378000202 acyl-activating enzyme (AAE) consensus motif; other site 889378000203 acyl-activating enzyme (AAE) consensus motif; other site 889378000204 putative AMP binding site [chemical binding]; other site 889378000205 putative active site [active] 889378000206 putative CoA binding site [chemical binding]; other site 889378000207 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 889378000208 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 889378000209 active site 889378000210 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 889378000211 substrate binding site [chemical binding]; other site 889378000212 catalytic residues [active] 889378000213 dimer interface [polypeptide binding]; other site 889378000214 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 889378000215 active site 889378000216 phosphorylation site [posttranslational modification] 889378000217 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 889378000218 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 889378000219 dimerization interface [polypeptide binding]; other site 889378000220 ATP binding site [chemical binding]; other site 889378000221 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 889378000222 dimerization interface [polypeptide binding]; other site 889378000223 ATP binding site [chemical binding]; other site 889378000224 CobB/CobQ-like glutamine amidotransferase domain; Region: GATase_5; pfam13507 889378000225 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 889378000226 conserved cys residue [active] 889378000227 Bifunctional nuclease; Region: DNase-RNase; pfam02577 889378000228 Putative glycosyl hydrolase domain; Region: DUF4015; cl17870 889378000229 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 889378000230 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 889378000231 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 889378000232 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 889378000233 putative ADP-binding pocket [chemical binding]; other site 889378000234 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 889378000235 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 889378000236 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 889378000237 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 889378000238 HlyD family secretion protein; Region: HlyD_3; pfam13437 889378000239 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 889378000240 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 889378000241 Outer membrane efflux protein; Region: OEP; pfam02321 889378000242 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 889378000243 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 889378000244 active site 889378000245 catalytic site [active] 889378000246 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 889378000247 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 889378000248 putative hydrolase; Provisional; Region: PRK11460 889378000249 Mnd1 family; Region: Mnd1; pfam03962 889378000250 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 889378000251 Mg2+ binding site [ion binding]; other site 889378000252 Uncharacterized conserved protein [Function unknown]; Region: COG5439 889378000253 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 889378000254 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 889378000255 dimer interface [polypeptide binding]; other site 889378000256 putative CheW interface [polypeptide binding]; other site 889378000257 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 889378000258 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 889378000259 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 889378000260 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 889378000261 NAD(P) binding site [chemical binding]; other site 889378000262 active site 889378000263 Alpha amylase catalytic domain found in eukaryotic and bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_euk_bac_CMD_like; cd11353 889378000264 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 889378000265 active site 889378000266 catalytic site [active] 889378000267 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 889378000268 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 889378000269 short chain dehydrogenase; Provisional; Region: PRK06197 889378000270 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 889378000271 putative NAD(P) binding site [chemical binding]; other site 889378000272 active site 889378000273 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 889378000274 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 889378000275 metal binding site [ion binding]; metal-binding site 889378000276 active site 889378000277 I-site; other site 889378000278 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 889378000279 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 889378000280 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 889378000281 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl17855 889378000282 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 889378000283 Protein of unknown function DUF45; Region: DUF45; pfam01863 889378000284 Putative esterase; Region: Esterase; pfam00756 889378000285 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 889378000286 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 889378000287 PAS domain; Region: PAS_9; pfam13426 889378000288 putative active site [active] 889378000289 heme pocket [chemical binding]; other site 889378000290 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 889378000291 Histidine kinase; Region: HisKA_2; pfam07568 889378000292 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 889378000293 ATP binding site [chemical binding]; other site 889378000294 Mg2+ binding site [ion binding]; other site 889378000295 G-X-G motif; other site 889378000296 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 889378000297 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac2_AmyA; cd11316 889378000298 Ca binding site [ion binding]; other site 889378000299 active site 889378000300 catalytic site [active] 889378000301 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 889378000302 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 889378000303 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 889378000304 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 889378000305 dimer interface [polypeptide binding]; other site 889378000306 conserved gate region; other site 889378000307 putative PBP binding loops; other site 889378000308 ABC-ATPase subunit interface; other site 889378000309 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 889378000310 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 889378000311 dimer interface [polypeptide binding]; other site 889378000312 conserved gate region; other site 889378000313 putative PBP binding loops; other site 889378000314 ABC-ATPase subunit interface; other site 889378000315 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cd00578 889378000316 hexamer (dimer of trimers) interface [polypeptide binding]; other site 889378000317 substrate binding site [chemical binding]; other site 889378000318 trimer interface [polypeptide binding]; other site 889378000319 Mn binding site [ion binding]; other site 889378000320 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 889378000321 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 889378000322 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 889378000323 nucleotide binding site [chemical binding]; other site 889378000324 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 889378000325 TPP-binding site [chemical binding]; other site 889378000326 dimer interface [polypeptide binding]; other site 889378000327 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 889378000328 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 889378000329 PYR/PP interface [polypeptide binding]; other site 889378000330 dimer interface [polypeptide binding]; other site 889378000331 TPP binding site [chemical binding]; other site 889378000332 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 889378000333 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 889378000334 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 889378000335 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 889378000336 putative catalytic cysteine [active] 889378000337 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 889378000338 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 889378000339 CoA-ligase; Region: Ligase_CoA; pfam00549 889378000340 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 889378000341 CoA binding domain; Region: CoA_binding; smart00881 889378000342 CoA-ligase; Region: Ligase_CoA; pfam00549 889378000343 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 889378000344 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 889378000345 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 889378000346 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 889378000347 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 889378000348 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 889378000349 alpha-glucosidase; Provisional; Region: PRK10426 889378000350 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 889378000351 YihQ is a bacterial alpha-glucosidase with a conserved glycosyl hydrolase family 31 (GH31) domain that catalyzes the release of an alpha-glucosyl residue from the non-reducing end of alpha-glucoside substrates such as alpha-glucosyl fluoride. Orthologs...; Region: GH31_glucosidase_YihQ; cd06594 889378000352 putative active site [active] 889378000353 putative catalytic site [active] 889378000354 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 889378000355 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 889378000356 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 889378000357 Hexamer interface [polypeptide binding]; other site 889378000358 Hexagonal pore residue; other site 889378000359 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 889378000360 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 889378000361 dimerization interface [polypeptide binding]; other site 889378000362 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 889378000363 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 889378000364 dimer interface [polypeptide binding]; other site 889378000365 putative CheW interface [polypeptide binding]; other site 889378000366 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 889378000367 ResB-like family; Region: ResB; pfam05140 889378000368 Predicted aminopeptidase (DUF2265); Region: DUF2265; cl17720 889378000369 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 889378000370 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 889378000371 DNA binding residues [nucleotide binding] 889378000372 dimerization interface [polypeptide binding]; other site 889378000373 Cache domain; Region: Cache_1; pfam02743 889378000374 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 889378000375 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 889378000376 dimerization interface [polypeptide binding]; other site 889378000377 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 889378000378 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 889378000379 dimer interface [polypeptide binding]; other site 889378000380 putative CheW interface [polypeptide binding]; other site 889378000381 STAS domain; Region: STAS_2; pfam13466 889378000382 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 889378000383 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 889378000384 putative binding surface; other site 889378000385 active site 889378000386 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 889378000387 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 889378000388 ATP binding site [chemical binding]; other site 889378000389 Mg2+ binding site [ion binding]; other site 889378000390 G-X-G motif; other site 889378000391 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 889378000392 Omptin family; Region: Omptin; cl01886 889378000393 Uncharacterized conserved protein [Function unknown]; Region: COG3402 889378000394 Predicted membrane protein [Function unknown]; Region: COG3428 889378000395 Bacterial PH domain; Region: DUF304; pfam03703 889378000396 Bacterial PH domain; Region: DUF304; pfam03703 889378000397 Bacterial PH domain; Region: DUF304; pfam03703 889378000398 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 889378000399 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 889378000400 active site 889378000401 metal binding site [ion binding]; metal-binding site 889378000402 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 889378000403 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 889378000404 active site 889378000405 catalytic site [active] 889378000406 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 889378000407 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 889378000408 dimer interface [polypeptide binding]; other site 889378000409 phosphorylation site [posttranslational modification] 889378000410 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 889378000411 ATP binding site [chemical binding]; other site 889378000412 Mg2+ binding site [ion binding]; other site 889378000413 G-X-G motif; other site 889378000414 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 889378000415 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 889378000416 active site 889378000417 phosphorylation site [posttranslational modification] 889378000418 intermolecular recognition site; other site 889378000419 dimerization interface [polypeptide binding]; other site 889378000420 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 889378000421 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 889378000422 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 889378000423 dimer interface [polypeptide binding]; other site 889378000424 putative CheW interface [polypeptide binding]; other site 889378000425 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 889378000426 IHF dimer interface [polypeptide binding]; other site 889378000427 IHF - DNA interface [nucleotide binding]; other site 889378000428 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 889378000429 Major Facilitator Superfamily; Region: MFS_1; pfam07690 889378000430 putative substrate translocation pore; other site 889378000431 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 889378000432 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 889378000433 motif II; other site 889378000434 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 889378000435 AAA domain; Region: AAA_31; pfam13614 889378000436 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 889378000437 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 889378000438 pyruvate phosphate dikinase; Provisional; Region: PRK09279 889378000439 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 889378000440 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 889378000441 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 889378000442 HSP70 interaction site [polypeptide binding]; other site 889378000443 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 889378000444 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 889378000445 FtsX-like permease family; Region: FtsX; pfam02687 889378000446 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 889378000447 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 889378000448 FtsX-like permease family; Region: FtsX; pfam02687 889378000449 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 889378000450 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 889378000451 Walker A/P-loop; other site 889378000452 ATP binding site [chemical binding]; other site 889378000453 Q-loop/lid; other site 889378000454 ABC transporter signature motif; other site 889378000455 Walker B; other site 889378000456 D-loop; other site 889378000457 H-loop/switch region; other site 889378000458 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 889378000459 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 889378000460 Predicted transcriptional regulators [Transcription]; Region: COG1725 889378000461 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 889378000462 DNA-binding site [nucleotide binding]; DNA binding site 889378000463 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 889378000464 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 889378000465 NAD(P) binding site [chemical binding]; other site 889378000466 catalytic residues [active] 889378000467 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 889378000468 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 889378000469 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; cd01066 889378000470 active site 889378000471 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 889378000472 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 889378000473 inhibitor-cofactor binding pocket; inhibition site 889378000474 pyridoxal 5'-phosphate binding site [chemical binding]; other site 889378000475 catalytic residue [active] 889378000476 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 889378000477 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 889378000478 metal binding site [ion binding]; metal-binding site 889378000479 dimer interface [polypeptide binding]; other site 889378000480 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 889378000481 B12 binding site [chemical binding]; other site 889378000482 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 889378000483 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 889378000484 FeS/SAM binding site; other site 889378000485 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 889378000486 Winged helix DNA-binding domain; Region: HTH_34; pfam13601 889378000487 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 889378000488 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 889378000489 Walker A/P-loop; other site 889378000490 ATP binding site [chemical binding]; other site 889378000491 Q-loop/lid; other site 889378000492 ABC transporter signature motif; other site 889378000493 Walker B; other site 889378000494 D-loop; other site 889378000495 H-loop/switch region; other site 889378000496 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 889378000497 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 889378000498 FtsX-like permease family; Region: FtsX; pfam02687 889378000499 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 889378000500 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 889378000501 FtsX-like permease family; Region: FtsX; pfam02687 889378000502 cyclase homology domain; Region: CHD; cd07302 889378000503 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 889378000504 nucleotidyl binding site; other site 889378000505 metal binding site [ion binding]; metal-binding site 889378000506 dimer interface [polypeptide binding]; other site 889378000507 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14095 889378000508 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 889378000509 active site 889378000510 dimer interface [polypeptide binding]; other site 889378000511 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 889378000512 dimer interface [polypeptide binding]; other site 889378000513 active site 889378000514 argininosuccinate synthase; Provisional; Region: PRK13820 889378000515 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 889378000516 ANP binding site [chemical binding]; other site 889378000517 Substrate Binding Site II [chemical binding]; other site 889378000518 Substrate Binding Site I [chemical binding]; other site 889378000519 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 889378000520 acetylornithine aminotransferase; Provisional; Region: PRK02627 889378000521 inhibitor-cofactor binding pocket; inhibition site 889378000522 pyridoxal 5'-phosphate binding site [chemical binding]; other site 889378000523 catalytic residue [active] 889378000524 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 889378000525 nucleotide binding site [chemical binding]; other site 889378000526 N-acetyl-L-glutamate binding site [chemical binding]; other site 889378000527 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 889378000528 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 889378000529 Arginine repressor [Transcription]; Region: ArgR; COG1438 889378000530 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 889378000531 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 889378000532 Protein of unknown function (DUF342); Region: DUF342; pfam03961 889378000533 Glucose-6-phosphate dehydrogenase subunit; Region: OpcA_G6PD_assem; cl01359 889378000534 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 889378000535 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 889378000536 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 889378000537 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 889378000538 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 889378000539 ring oligomerisation interface [polypeptide binding]; other site 889378000540 ATP/Mg binding site [chemical binding]; other site 889378000541 stacking interactions; other site 889378000542 hinge regions; other site 889378000543 Preprotein translocase subunit; Region: YajC; pfam02699 889378000544 protein-export membrane protein SecD; Region: secD; TIGR01129 889378000545 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 889378000546 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 889378000547 Protein export membrane protein; Region: SecD_SecF; pfam02355 889378000548 Amino acid permease; Region: AA_permease; pfam00324 889378000549 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 889378000550 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 889378000551 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 889378000552 dimer interface [polypeptide binding]; other site 889378000553 phosphorylation site [posttranslational modification] 889378000554 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 889378000555 ATP binding site [chemical binding]; other site 889378000556 Mg2+ binding site [ion binding]; other site 889378000557 G-X-G motif; other site 889378000558 CHASE2 domain; Region: CHASE2; pfam05226 889378000559 CHASE2 domain; Region: CHASE2; pfam05226 889378000560 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 889378000561 cyclase homology domain; Region: CHD; cd07302 889378000562 nucleotidyl binding site; other site 889378000563 metal binding site [ion binding]; metal-binding site 889378000564 dimer interface [polypeptide binding]; other site 889378000565 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 889378000566 serine O-acetyltransferase; Region: cysE; TIGR01172 889378000567 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 889378000568 trimer interface [polypeptide binding]; other site 889378000569 active site 889378000570 substrate binding site [chemical binding]; other site 889378000571 CoA binding site [chemical binding]; other site 889378000572 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 889378000573 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 889378000574 motif II; other site 889378000575 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 889378000576 dimer interface [polypeptide binding]; other site 889378000577 ADP-ribose binding site [chemical binding]; other site 889378000578 active site 889378000579 nudix motif; other site 889378000580 metal binding site [ion binding]; metal-binding site 889378000581 CheB methylesterase; Region: CheB_methylest; pfam01339 889378000582 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 889378000583 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 889378000584 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 889378000585 PAS domain S-box; Region: sensory_box; TIGR00229 889378000586 PAS domain S-box; Region: sensory_box; TIGR00229 889378000587 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 889378000588 putative active site [active] 889378000589 heme pocket [chemical binding]; other site 889378000590 PAS domain S-box; Region: sensory_box; TIGR00229 889378000591 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 889378000592 putative active site [active] 889378000593 heme pocket [chemical binding]; other site 889378000594 PAS domain; Region: PAS_9; pfam13426 889378000595 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 889378000596 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 889378000597 putative active site [active] 889378000598 heme pocket [chemical binding]; other site 889378000599 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 889378000600 dimer interface [polypeptide binding]; other site 889378000601 phosphorylation site [posttranslational modification] 889378000602 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 889378000603 ATP binding site [chemical binding]; other site 889378000604 G-X-G motif; other site 889378000605 Response regulator receiver domain; Region: Response_reg; pfam00072 889378000606 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 889378000607 active site 889378000608 phosphorylation site [posttranslational modification] 889378000609 intermolecular recognition site; other site 889378000610 dimerization interface [polypeptide binding]; other site 889378000611 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 889378000612 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 889378000613 putative GEF interaction site [polypeptide binding]; other site 889378000614 G1 box; other site 889378000615 GTP/Mg2+ binding site [chemical binding]; other site 889378000616 Switch I region; other site 889378000617 G2 box; other site 889378000618 G3 box; other site 889378000619 Switch II region; other site 889378000620 G4 box; other site 889378000621 G5 box; other site 889378000622 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 889378000623 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 889378000624 PilZ domain; Region: PilZ; pfam07238 889378000625 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 889378000626 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 889378000627 Predicted methyltransferases [General function prediction only]; Region: COG0313 889378000628 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 889378000629 putative SAM binding site [chemical binding]; other site 889378000630 putative homodimer interface [polypeptide binding]; other site 889378000631 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 889378000632 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 889378000633 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 889378000634 active site 889378000635 NAD binding site [chemical binding]; other site 889378000636 metal binding site [ion binding]; metal-binding site 889378000637 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 889378000638 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 889378000639 HDOD domain; Region: HDOD; pfam08668 889378000640 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 889378000641 Zn2+ binding site [ion binding]; other site 889378000642 Mg2+ binding site [ion binding]; other site 889378000643 AAA domain; Region: AAA_32; pfam13654 889378000644 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 889378000645 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 889378000646 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 889378000647 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 889378000648 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 889378000649 DNA binding residues [nucleotide binding] 889378000650 dimerization interface [polypeptide binding]; other site 889378000651 Response regulator receiver domain; Region: Response_reg; pfam00072 889378000652 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 889378000653 active site 889378000654 phosphorylation site [posttranslational modification] 889378000655 intermolecular recognition site; other site 889378000656 dimerization interface [polypeptide binding]; other site 889378000657 Uncharacterized conserved protein [Function unknown]; Region: COG0327 889378000658 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 889378000659 signal peptidase II; Provisional; Region: lspA; PRK01574 889378000660 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 889378000661 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 889378000662 Part of AAA domain; Region: AAA_19; pfam13245 889378000663 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 889378000664 EamA-like transporter family; Region: EamA; cl17759 889378000665 PAS domain; Region: PAS_9; pfam13426 889378000666 PAS fold; Region: PAS_4; pfam08448 889378000667 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 889378000668 putative active site [active] 889378000669 heme pocket [chemical binding]; other site 889378000670 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 889378000671 PAS fold; Region: PAS_3; pfam08447 889378000672 putative active site [active] 889378000673 heme pocket [chemical binding]; other site 889378000674 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 889378000675 GAF domain; Region: GAF_2; pfam13185 889378000676 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 889378000677 dimer interface [polypeptide binding]; other site 889378000678 phosphorylation site [posttranslational modification] 889378000679 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 889378000680 ATP binding site [chemical binding]; other site 889378000681 Mg2+ binding site [ion binding]; other site 889378000682 G-X-G motif; other site 889378000683 Response regulator receiver domain; Region: Response_reg; pfam00072 889378000684 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 889378000685 active site 889378000686 phosphorylation site [posttranslational modification] 889378000687 intermolecular recognition site; other site 889378000688 dimerization interface [polypeptide binding]; other site 889378000689 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 889378000690 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 889378000691 active site 889378000692 phosphorylation site [posttranslational modification] 889378000693 intermolecular recognition site; other site 889378000694 dimerization interface [polypeptide binding]; other site 889378000695 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 889378000696 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 889378000697 dimerization interface [polypeptide binding]; other site 889378000698 DPS ferroxidase diiron center [ion binding]; other site 889378000699 ion pore; other site 889378000700 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 889378000701 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 889378000702 active site 889378000703 dimerization interface [polypeptide binding]; other site 889378000704 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 889378000705 FAD binding domain; Region: FAD_binding_4; pfam01565 889378000706 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 889378000707 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 889378000708 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 889378000709 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 889378000710 motif II; other site 889378000711 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 889378000712 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 889378000713 dimer interface [polypeptide binding]; other site 889378000714 active site 889378000715 CoA binding pocket [chemical binding]; other site 889378000716 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 889378000717 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 889378000718 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 889378000719 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 889378000720 NAD(P) binding site [chemical binding]; other site 889378000721 homotetramer interface [polypeptide binding]; other site 889378000722 homodimer interface [polypeptide binding]; other site 889378000723 active site 889378000724 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 889378000725 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 889378000726 dimer interface [polypeptide binding]; other site 889378000727 active site 889378000728 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 889378000729 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 889378000730 nucleophile elbow; other site 889378000731 Surface antigen; Region: Bac_surface_Ag; pfam01103 889378000732 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 889378000733 dimer interface [polypeptide binding]; other site 889378000734 phosphorylation site [posttranslational modification] 889378000735 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 889378000736 ATP binding site [chemical binding]; other site 889378000737 Mg2+ binding site [ion binding]; other site 889378000738 G-X-G motif; other site 889378000739 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 889378000740 Response regulator receiver domain; Region: Response_reg; pfam00072 889378000741 active site 889378000742 phosphorylation site [posttranslational modification] 889378000743 intermolecular recognition site; other site 889378000744 dimerization interface [polypeptide binding]; other site 889378000745 Hpt domain; Region: Hpt; pfam01627 889378000746 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 889378000747 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 889378000748 ATP binding site [chemical binding]; other site 889378000749 Mg2+ binding site [ion binding]; other site 889378000750 G-X-G motif; other site 889378000751 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 889378000752 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 889378000753 dimer interface [polypeptide binding]; other site 889378000754 putative CheW interface [polypeptide binding]; other site 889378000755 Peptidase family M48; Region: Peptidase_M48; cl12018 889378000756 Predicted transporter component [General function prediction only]; Region: COG2391 889378000757 Sulphur transport; Region: Sulf_transp; pfam04143 889378000758 Predicted transporter component [General function prediction only]; Region: COG2391 889378000759 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 889378000760 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 889378000761 active site 889378000762 UDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: GalU; COG1210 889378000763 active site 889378000764 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 889378000765 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 889378000766 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 889378000767 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 889378000768 Protein of unknown function (DUF964); Region: DUF964; pfam06133 889378000769 Protein of unknown function (DUF964); Region: DUF964; cl01483 889378000770 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 889378000771 dimerization interface [polypeptide binding]; other site 889378000772 putative DNA binding site [nucleotide binding]; other site 889378000773 putative Zn2+ binding site [ion binding]; other site 889378000774 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 889378000775 Ligand Binding Site [chemical binding]; other site 889378000776 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 889378000777 Ligand Binding Site [chemical binding]; other site 889378000778 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 889378000779 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 889378000780 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 889378000781 PhoU domain; Region: PhoU; pfam01895 889378000782 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 889378000783 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 889378000784 ligand binding site [chemical binding]; other site 889378000785 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 889378000786 dimerization interface [polypeptide binding]; other site 889378000787 Histidine kinase; Region: His_kinase; pfam06580 889378000788 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 889378000789 Response regulator receiver domain; Region: Response_reg; pfam00072 889378000790 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 889378000791 active site 889378000792 phosphorylation site [posttranslational modification] 889378000793 intermolecular recognition site; other site 889378000794 dimerization interface [polypeptide binding]; other site 889378000795 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 889378000796 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 889378000797 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 889378000798 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 889378000799 putative ligand binding site [chemical binding]; other site 889378000800 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 889378000801 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 889378000802 putative ligand binding site [chemical binding]; other site 889378000803 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 889378000804 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 889378000805 Walker A/P-loop; other site 889378000806 ATP binding site [chemical binding]; other site 889378000807 Q-loop/lid; other site 889378000808 ABC transporter signature motif; other site 889378000809 Walker B; other site 889378000810 D-loop; other site 889378000811 H-loop/switch region; other site 889378000812 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 889378000813 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 889378000814 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 889378000815 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 889378000816 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 889378000817 TM-ABC transporter signature motif; other site 889378000818 HAMP domain; Region: HAMP; pfam00672 889378000819 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 889378000820 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 889378000821 dimer interface [polypeptide binding]; other site 889378000822 putative CheW interface [polypeptide binding]; other site 889378000823 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 889378000824 Melibiase; Region: Melibiase; pfam02065 889378000825 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 889378000826 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 889378000827 putative active site [active] 889378000828 heme pocket [chemical binding]; other site 889378000829 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 889378000830 dimer interface [polypeptide binding]; other site 889378000831 phosphorylation site [posttranslational modification] 889378000832 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 889378000833 ATP binding site [chemical binding]; other site 889378000834 Mg2+ binding site [ion binding]; other site 889378000835 G-X-G motif; other site 889378000836 Response regulator receiver domain; Region: Response_reg; pfam00072 889378000837 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 889378000838 active site 889378000839 phosphorylation site [posttranslational modification] 889378000840 intermolecular recognition site; other site 889378000841 dimerization interface [polypeptide binding]; other site 889378000842 Ion channel; Region: Ion_trans_2; pfam07885 889378000843 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 889378000844 TrkA-N domain; Region: TrkA_N; pfam02254 889378000845 TrkA-C domain; Region: TrkA_C; pfam02080 889378000846 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 889378000847 Coenzyme A binding pocket [chemical binding]; other site 889378000848 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 889378000849 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 889378000850 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 889378000851 MoxR-like ATPases [General function prediction only]; Region: COG0714 889378000852 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 889378000853 Walker A motif; other site 889378000854 ATP binding site [chemical binding]; other site 889378000855 Walker B motif; other site 889378000856 arginine finger; other site 889378000857 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 889378000858 Protein of unknown function DUF58; Region: DUF58; pfam01882 889378000859 Probable beta-xylosidase; Provisional; Region: PLN03080 889378000860 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 889378000861 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 889378000862 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 889378000863 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 889378000864 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 889378000865 Histidine kinase; Region: HisKA_2; pfam07568 889378000866 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 889378000867 ATP binding site [chemical binding]; other site 889378000868 Mg2+ binding site [ion binding]; other site 889378000869 G-X-G motif; other site 889378000870 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 889378000871 zinc binding site [ion binding]; other site 889378000872 putative ligand binding site [chemical binding]; other site 889378000873 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 889378000874 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 889378000875 TM-ABC transporter signature motif; other site 889378000876 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 889378000877 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 889378000878 Walker A/P-loop; other site 889378000879 ATP binding site [chemical binding]; other site 889378000880 Q-loop/lid; other site 889378000881 ABC transporter signature motif; other site 889378000882 Walker B; other site 889378000883 D-loop; other site 889378000884 H-loop/switch region; other site 889378000885 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 889378000886 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 889378000887 putative active site [active] 889378000888 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 889378000889 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 889378000890 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 889378000891 active site 889378000892 catalytic site [active] 889378000893 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 889378000894 active site 889378000895 nucleophile elbow; other site 889378000896 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 889378000897 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 889378000898 ligand binding site [chemical binding]; other site 889378000899 flexible hinge region; other site 889378000900 cyclase homology domain; Region: CHD; cd07302 889378000901 nucleotidyl binding site; other site 889378000902 metal binding site [ion binding]; metal-binding site 889378000903 dimer interface [polypeptide binding]; other site 889378000904 AAA ATPase domain; Region: AAA_16; pfam13191 889378000905 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 889378000906 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 889378000907 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 889378000908 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 889378000909 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 889378000910 active site 889378000911 catalytic site [active] 889378000912 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 889378000913 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 889378000914 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 889378000915 catalytic site [active] 889378000916 active site 889378000917 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 889378000918 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 889378000919 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 889378000920 metal binding site [ion binding]; metal-binding site 889378000921 active site 889378000922 I-site; other site 889378000923 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 889378000924 Glutamine synthetase adenylyltransferase [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms]; Region: GlnE; COG1391 889378000925 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 889378000926 metal binding triad; other site 889378000927 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 889378000928 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 889378000929 metal binding triad; other site 889378000930 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 889378000931 glutamine synthetase, type I; Region: GlnA; TIGR00653 889378000932 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 889378000933 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 889378000934 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 889378000935 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 889378000936 Pleckstrin homology-like domain; Region: PH-like; cl17171 889378000937 Haemolytic domain; Region: Haemolytic; pfam01809 889378000938 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 889378000939 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 889378000940 metal binding site [ion binding]; metal-binding site 889378000941 dimer interface [polypeptide binding]; other site 889378000942 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 889378000943 active site 889378000944 phosphorylation site [posttranslational modification] 889378000945 PAS domain; Region: PAS_9; pfam13426 889378000946 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 889378000947 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 889378000948 metal binding site [ion binding]; metal-binding site 889378000949 active site 889378000950 I-site; other site 889378000951 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 889378000952 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09680 889378000953 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 889378000954 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 889378000955 FeS/SAM binding site; other site 889378000956 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 889378000957 putative ligand binding pocket/active site [active] 889378000958 putative metal binding site [ion binding]; other site 889378000959 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 889378000960 AMMECR1; Region: AMMECR1; pfam01871 889378000961 Protein of unknown function (DUF1667); Region: DUF1667; cl17602 889378000962 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 889378000963 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 889378000964 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 889378000965 Predicted dehydrogenase [General function prediction only]; Region: COG0579 889378000966 hydroxyglutarate oxidase; Provisional; Region: PRK11728 889378000967 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 889378000968 glycerol kinase; Provisional; Region: glpK; PRK00047 889378000969 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 889378000970 N- and C-terminal domain interface [polypeptide binding]; other site 889378000971 active site 889378000972 MgATP binding site [chemical binding]; other site 889378000973 catalytic site [active] 889378000974 metal binding site [ion binding]; metal-binding site 889378000975 glycerol binding site [chemical binding]; other site 889378000976 homotetramer interface [polypeptide binding]; other site 889378000977 homodimer interface [polypeptide binding]; other site 889378000978 FBP binding site [chemical binding]; other site 889378000979 protein IIAGlc interface [polypeptide binding]; other site 889378000980 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 889378000981 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 889378000982 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 889378000983 active site 889378000984 phosphorylation site [posttranslational modification] 889378000985 intermolecular recognition site; other site 889378000986 dimerization interface [polypeptide binding]; other site 889378000987 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 889378000988 DNA binding site [nucleotide binding] 889378000989 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 889378000990 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 889378000991 dimer interface [polypeptide binding]; other site 889378000992 phosphorylation site [posttranslational modification] 889378000993 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 889378000994 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 889378000995 ATP binding site [chemical binding]; other site 889378000996 Mg2+ binding site [ion binding]; other site 889378000997 G-X-G motif; other site 889378000998 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 889378000999 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 889378001000 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 889378001001 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 889378001002 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_2; cd09607 889378001003 active site 889378001004 Zn binding site [ion binding]; other site 889378001005 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 889378001006 active site 889378001007 multimer interface [polypeptide binding]; other site 889378001008 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 889378001009 MFS_1 like family; Region: MFS_1_like; pfam12832 889378001010 NGN-insert domain found between N-terminal domain (D1) and C-terminal KOW domain (DIII) repeats of some N-Utilization Substance G (NusG) N-terminal (NGN); Region: NGN-insert_like; cd09910 889378001011 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 889378001012 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 889378001013 Na binding site [ion binding]; other site 889378001014 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 889378001015 Ligand Binding Site [chemical binding]; other site 889378001016 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 889378001017 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 889378001018 metal binding site [ion binding]; metal-binding site 889378001019 active site 889378001020 I-site; other site 889378001021 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 889378001022 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 889378001023 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 889378001024 Walker A/P-loop; other site 889378001025 ATP binding site [chemical binding]; other site 889378001026 Q-loop/lid; other site 889378001027 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 889378001028 ABC transporter signature motif; other site 889378001029 Walker B; other site 889378001030 D-loop; other site 889378001031 ABC transporter; Region: ABC_tran_2; pfam12848 889378001032 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 889378001033 ABC transporter; Region: ABC_tran_2; pfam12848 889378001034 Transglycosylase; Region: Transgly; pfam00912 889378001035 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 889378001036 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 889378001037 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 889378001038 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 889378001039 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 889378001040 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 889378001041 protein binding site [polypeptide binding]; other site 889378001042 shikimate kinase; Reviewed; Region: aroK; PRK00131 889378001043 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 889378001044 ADP binding site [chemical binding]; other site 889378001045 magnesium binding site [ion binding]; other site 889378001046 putative shikimate binding site; other site 889378001047 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 889378001048 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 889378001049 minor groove reading motif; other site 889378001050 helix-hairpin-helix signature motif; other site 889378001051 substrate binding pocket [chemical binding]; other site 889378001052 active site 889378001053 GAF domain; Region: GAF; pfam01590 889378001054 GAF domain; Region: GAF_2; pfam13185 889378001055 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 889378001056 Zn2+ binding site [ion binding]; other site 889378001057 Mg2+ binding site [ion binding]; other site 889378001058 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 889378001059 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 889378001060 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 889378001061 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 889378001062 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 889378001063 motif II; other site 889378001064 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 889378001065 endonuclease IV; Provisional; Region: PRK01060 889378001066 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 889378001067 AP (apurinic/apyrimidinic) site pocket; other site 889378001068 DNA interaction; other site 889378001069 Metal-binding active site; metal-binding site 889378001070 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 889378001071 ArsC family; Region: ArsC; pfam03960 889378001072 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 889378001073 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 889378001074 dimer interface [polypeptide binding]; other site 889378001075 phosphorylation site [posttranslational modification] 889378001076 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 889378001077 ATP binding site [chemical binding]; other site 889378001078 Mg2+ binding site [ion binding]; other site 889378001079 G-X-G motif; other site 889378001080 GTP-binding protein YchF; Reviewed; Region: PRK09601 889378001081 YchF GTPase; Region: YchF; cd01900 889378001082 G1 box; other site 889378001083 GTP/Mg2+ binding site [chemical binding]; other site 889378001084 Switch I region; other site 889378001085 G2 box; other site 889378001086 Switch II region; other site 889378001087 G3 box; other site 889378001088 G4 box; other site 889378001089 G5 box; other site 889378001090 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 889378001091 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 889378001092 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 889378001093 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 889378001094 beta-galactosidase; Region: BGL; TIGR03356 889378001095 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 889378001096 synthetase active site [active] 889378001097 NTP binding site [chemical binding]; other site 889378001098 metal binding site [ion binding]; metal-binding site 889378001099 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 889378001100 TPR repeat; Region: TPR_11; pfam13414 889378001101 binding surface 889378001102 TPR motif; other site 889378001103 TPR repeat; Region: TPR_11; pfam13414 889378001104 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 889378001105 binding surface 889378001106 TPR motif; other site 889378001107 TPR repeat; Region: TPR_11; pfam13414 889378001108 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 889378001109 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 889378001110 tetramer interface [polypeptide binding]; other site 889378001111 pyridoxal 5'-phosphate binding site [chemical binding]; other site 889378001112 catalytic residue [active] 889378001113 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; cl00086 889378001114 putative binding surface; other site 889378001115 active site 889378001116 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 889378001117 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 889378001118 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 889378001119 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 889378001120 dimer interface [polypeptide binding]; other site 889378001121 phosphorylation site [posttranslational modification] 889378001122 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 889378001123 ATP binding site [chemical binding]; other site 889378001124 Mg2+ binding site [ion binding]; other site 889378001125 G-X-G motif; other site 889378001126 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 889378001127 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 889378001128 active site 889378001129 phosphorylation site [posttranslational modification] 889378001130 intermolecular recognition site; other site 889378001131 dimerization interface [polypeptide binding]; other site 889378001132 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 889378001133 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 889378001134 active site 889378001135 phosphorylation site [posttranslational modification] 889378001136 intermolecular recognition site; other site 889378001137 dimerization interface [polypeptide binding]; other site 889378001138 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 889378001139 putative binding surface; other site 889378001140 active site 889378001141 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; cl01977 889378001142 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 889378001143 catalytic residues [active] 889378001144 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 889378001145 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 889378001146 Potassium binding sites [ion binding]; other site 889378001147 Cesium cation binding sites [ion binding]; other site 889378001148 PAS domain S-box; Region: sensory_box; TIGR00229 889378001149 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 889378001150 putative active site [active] 889378001151 heme pocket [chemical binding]; other site 889378001152 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 889378001153 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 889378001154 dimer interface [polypeptide binding]; other site 889378001155 phosphorylation site [posttranslational modification] 889378001156 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 889378001157 ATP binding site [chemical binding]; other site 889378001158 Mg2+ binding site [ion binding]; other site 889378001159 G-X-G motif; other site 889378001160 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 889378001161 classical (c) SDRs; Region: SDR_c; cd05233 889378001162 NAD(P) binding site [chemical binding]; other site 889378001163 active site 889378001164 Alcohol acetyltransferase; Region: AATase; pfam07247 889378001165 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 889378001166 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 889378001167 mevalonate kinase; Region: mevalon_kin; TIGR00549 889378001168 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 889378001169 Phosphomevalonate kinase [Lipid metabolism]; Region: ERG8; COG3890 889378001170 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 889378001171 diphosphomevalonate decarboxylase; Region: PLN02407 889378001172 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 889378001173 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 889378001174 homodimer interface [polypeptide binding]; other site 889378001175 catalytic residues [active] 889378001176 NAD binding site [chemical binding]; other site 889378001177 substrate binding pocket [chemical binding]; other site 889378001178 flexible flap; other site 889378001179 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 889378001180 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 889378001181 homotetramer interface [polypeptide binding]; other site 889378001182 FMN binding site [chemical binding]; other site 889378001183 homodimer contacts [polypeptide binding]; other site 889378001184 putative active site [active] 889378001185 putative substrate binding site [chemical binding]; other site 889378001186 "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 889378001187 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 889378001188 dimer interface [polypeptide binding]; other site 889378001189 active site 889378001190 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 889378001191 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 889378001192 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 889378001193 ligand binding site [chemical binding]; other site 889378001194 flexible hinge region; other site 889378001195 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 889378001196 Predicted permease; Region: DUF318; cl17795 889378001197 Predicted permease; Region: DUF318; cl17795 889378001198 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 889378001199 dimerization interface [polypeptide binding]; other site 889378001200 putative DNA binding site [nucleotide binding]; other site 889378001201 putative Zn2+ binding site [ion binding]; other site 889378001202 Flagellar protein YcgR; Region: YcgR_2; pfam12945 889378001203 PilZ domain; Region: PilZ; pfam07238 889378001204 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 889378001205 ATP-grasp domain; Region: ATP-grasp_4; cl17255 889378001206 TAP-like protein; Region: Abhydrolase_4; pfam08386 889378001207 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 889378001208 TfoX N-terminal domain; Region: TfoX_N; pfam04993 889378001209 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 889378001210 putative hydrophobic ligand binding site [chemical binding]; other site 889378001211 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 889378001212 Predicted flavoprotein [General function prediction only]; Region: COG0431 889378001213 Macrolide 2'-Phosphotransferase (MPH2'). MPH2' is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase; Region: MPH2' cd05152 889378001214 Phosphotransferase enzyme family; Region: APH; pfam01636 889378001215 putative active site [active] 889378001216 putative substrate binding site [chemical binding]; other site 889378001217 ATP binding site [chemical binding]; other site 889378001218 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 889378001219 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 889378001220 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 889378001221 WHG domain; Region: WHG; pfam13305 889378001222 FMN-binding domain; Region: FMN_bind; cl01081 889378001223 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 889378001224 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional; Region: PRK13982 889378001225 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 889378001226 dimer interface [polypeptide binding]; other site 889378001227 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 889378001228 dimer interface [polypeptide binding]; other site 889378001229 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 889378001230 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 889378001231 putative active site [active] 889378001232 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 889378001233 Uncharacterized conserved protein [Function unknown]; Region: COG3391 889378001234 Transcriptional regulators [Transcription]; Region: MarR; COG1846 889378001235 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 889378001236 putative DNA binding site [nucleotide binding]; other site 889378001237 putative Zn2+ binding site [ion binding]; other site 889378001238 Ribosomal protein S19e; Region: Ribosomal_S19e; cl00969 889378001239 Predicted transcriptional regulator [Transcription]; Region: COG2378 889378001240 WYL domain; Region: WYL; pfam13280 889378001241 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 889378001242 CRISPR/Cas system-associated protein Cas3/Cas2; Region: Cas3_Cas2_I-F; cd09673 889378001243 CRISPR-associated helicase Cas3, subtype I-F/YPEST; Region: cas3_yersinia; TIGR02562 889378001244 CRISPR/Cas system-associated protein Csy1; Region: Csy1_I-F; cl09829 889378001245 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cd09736 889378001246 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cd09737 889378001247 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cl09835 889378001248 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 889378001249 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 889378001250 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 889378001251 pyridoxal 5'-phosphate binding site [chemical binding]; other site 889378001252 homodimer interface [polypeptide binding]; other site 889378001253 catalytic residue [active] 889378001254 Transcriptional regulators [Transcription]; Region: PurR; COG1609 889378001255 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 889378001256 DNA binding site [nucleotide binding] 889378001257 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 889378001258 dimerization interface [polypeptide binding]; other site 889378001259 ligand binding site [chemical binding]; other site 889378001260 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 889378001261 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 889378001262 Walker A/P-loop; other site 889378001263 ATP binding site [chemical binding]; other site 889378001264 Q-loop/lid; other site 889378001265 ABC transporter signature motif; other site 889378001266 Walker B; other site 889378001267 D-loop; other site 889378001268 H-loop/switch region; other site 889378001269 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 889378001270 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 889378001271 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 889378001272 TM-ABC transporter signature motif; other site 889378001273 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 889378001274 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 889378001275 ligand binding site [chemical binding]; other site 889378001276 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 889378001277 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 889378001278 inhibitor binding site; inhibition site 889378001279 catalytic Zn binding site [ion binding]; other site 889378001280 structural Zn binding site [ion binding]; other site 889378001281 NADP binding site [chemical binding]; other site 889378001282 tetramer interface [polypeptide binding]; other site 889378001283 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 889378001284 nucleotide binding site [chemical binding]; other site 889378001285 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 889378001286 nucleotide binding site [chemical binding]; other site 889378001287 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; cl01054 889378001288 dimerization interface [polypeptide binding]; other site 889378001289 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 889378001290 dimer interface [polypeptide binding]; other site 889378001291 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 889378001292 putative CheW interface [polypeptide binding]; other site 889378001293 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 889378001294 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 889378001295 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 889378001296 MgtE intracellular N domain; Region: MgtE_N; pfam03448 889378001297 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 889378001298 Divalent cation transporter; Region: MgtE; pfam01769 889378001299 magnesium transport protein MgtC; Provisional; Region: PRK15385 889378001300 MgtC family; Region: MgtC; pfam02308 889378001301 ykoK leader 889378001302 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 889378001303 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 889378001304 Walker A/P-loop; other site 889378001305 ATP binding site [chemical binding]; other site 889378001306 Q-loop/lid; other site 889378001307 ABC transporter signature motif; other site 889378001308 Walker B; other site 889378001309 D-loop; other site 889378001310 H-loop/switch region; other site 889378001311 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 889378001312 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 889378001313 Histidine kinase; Region: HisKA_3; pfam07730 889378001314 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 889378001315 ATP binding site [chemical binding]; other site 889378001316 Mg2+ binding site [ion binding]; other site 889378001317 G-X-G motif; other site 889378001318 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 889378001319 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 889378001320 active site 889378001321 phosphorylation site [posttranslational modification] 889378001322 intermolecular recognition site; other site 889378001323 dimerization interface [polypeptide binding]; other site 889378001324 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 889378001325 DNA binding residues [nucleotide binding] 889378001326 dimerization interface [polypeptide binding]; other site 889378001327 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 889378001328 dimer interface [polypeptide binding]; other site 889378001329 putative tRNA-binding site [nucleotide binding]; other site 889378001330 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 889378001331 CAAX protease self-immunity; Region: Abi; pfam02517 889378001332 AAA domain; Region: AAA_14; pfam13173 889378001333 AAA domain; Region: AAA_22; pfam13401 889378001334 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 889378001335 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 889378001336 oligomeric interface; other site 889378001337 putative active site [active] 889378001338 homodimer interface [polypeptide binding]; other site 889378001339 Protein of unknown function DUF86; Region: DUF86; cl01031 889378001340 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 889378001341 active site 889378001342 NTP binding site [chemical binding]; other site 889378001343 metal binding triad [ion binding]; metal-binding site 889378001344 antibiotic binding site [chemical binding]; other site 889378001345 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 889378001346 oligomeric interface; other site 889378001347 putative active site [active] 889378001348 homodimer interface [polypeptide binding]; other site 889378001349 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 889378001350 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 889378001351 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 889378001352 Ligand Binding Site [chemical binding]; other site 889378001353 PIN domain of the Rv0301 toxin of Mycobacterium tuberculosis and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MtRv0301; cd09882 889378001354 putative active site [active] 889378001355 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 889378001356 homoserine O-succinyltransferase; Provisional; Region: PRK05368 889378001357 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 889378001358 proposed active site lysine [active] 889378001359 conserved cys residue [active] 889378001360 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 889378001361 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 889378001362 FMN binding site [chemical binding]; other site 889378001363 active site 889378001364 catalytic residues [active] 889378001365 substrate binding site [chemical binding]; other site 889378001366 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 889378001367 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 889378001368 metal binding site [ion binding]; metal-binding site 889378001369 active site 889378001370 I-site; other site 889378001371 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 889378001372 Phosphate transporter family; Region: PHO4; pfam01384 889378001373 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 889378001374 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 889378001375 Domain of unknown function (DUF4165); Region: DUF4165; pfam13752 889378001376 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 889378001377 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 889378001378 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 889378001379 ligand binding site [chemical binding]; other site 889378001380 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 889378001381 PGAP1-like protein; Region: PGAP1; pfam07819 889378001382 MG2 domain; Region: A2M_N; pfam01835 889378001383 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 889378001384 Alpha-2-macroglobulin family; Region: A2M; pfam00207 889378001385 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 889378001386 Transglycosylase; Region: Transgly; pfam00912 889378001387 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 889378001388 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 889378001389 MFS/sugar transport protein; Region: MFS_2; pfam13347 889378001390 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 889378001391 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 889378001392 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 889378001393 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 889378001394 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 889378001395 Sporulation related domain; Region: SPOR; pfam05036 889378001396 Lysyl-tRNA synthetase (class I) [Translation, ribosomal structure and biogenesis]; Region: LysS; COG1384 889378001397 catalytic core domain of class I lysyl tRNA synthetase; Region: LysRS_core_class_I; cd00674 889378001398 active site 889378001399 HIGH motif; other site 889378001400 KMSKS motif; other site 889378001401 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 889378001402 tetramer (dimer of dimers) interface [polypeptide binding]; other site 889378001403 active site 889378001404 dimer interface [polypeptide binding]; other site 889378001405 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 889378001406 G1 box; other site 889378001407 GTP/Mg2+ binding site [chemical binding]; other site 889378001408 Switch I region; other site 889378001409 G2 box; other site 889378001410 Switch II region; other site 889378001411 G3 box; other site 889378001412 G4 box; other site 889378001413 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 889378001414 ATP-dependent Clp protease proteolytic subunit; Provisional; Region: PRK14512 889378001415 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 889378001416 oligomer interface [polypeptide binding]; other site 889378001417 active site residues [active] 889378001418 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 889378001419 ATP binding site [chemical binding]; other site 889378001420 active site 889378001421 substrate binding site [chemical binding]; other site 889378001422 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 889378001423 putative catalytic site [active] 889378001424 putative metal binding site [ion binding]; other site 889378001425 putative phosphate binding site [ion binding]; other site 889378001426 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 889378001427 ligand binding site [chemical binding]; other site 889378001428 active site 889378001429 RmuC family; Region: RmuC; pfam02646 889378001430 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 889378001431 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 889378001432 active site 889378001433 catalytic residues [active] 889378001434 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 889378001435 putative dimer interface [polypeptide binding]; other site 889378001436 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 889378001437 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 889378001438 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 889378001439 putative dimer interface [polypeptide binding]; other site 889378001440 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 889378001441 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; cl00065 889378001442 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 889378001443 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 889378001444 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 889378001445 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 889378001446 dimerization interface [polypeptide binding]; other site 889378001447 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 889378001448 cyclase homology domain; Region: CHD; cd07302 889378001449 nucleotidyl binding site; other site 889378001450 metal binding site [ion binding]; metal-binding site 889378001451 dimer interface [polypeptide binding]; other site 889378001452 DOMON-like domain of copper-dependent monooxygenases and related proteins; Region: DOMON_DOH; cd09631 889378001453 putative ligand binding site [chemical binding]; other site 889378001454 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 889378001455 active site 889378001456 catalytic site [active] 889378001457 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 889378001458 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 889378001459 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 889378001460 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 889378001461 active site 889378001462 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 889378001463 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 889378001464 active site 889378001465 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 889378001466 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 889378001467 NAD binding site [chemical binding]; other site 889378001468 ATP-grasp domain; Region: ATP-grasp_4; cl17255 889378001469 AIR carboxylase; Region: AIRC; pfam00731 889378001470 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 889378001471 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 889378001472 Uncharacterized conserved protein [Function unknown]; Region: COG2968 889378001473 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 889378001474 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 889378001475 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 889378001476 glycine dehydrogenase; Provisional; Region: PRK05367 889378001477 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 889378001478 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 889378001479 catalytic residue [active] 889378001480 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 889378001481 tetramer interface [polypeptide binding]; other site 889378001482 pyridoxal 5'-phosphate binding site [chemical binding]; other site 889378001483 catalytic residue [active] 889378001484 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 889378001485 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 889378001486 active site 889378001487 ADP/pyrophosphate binding site [chemical binding]; other site 889378001488 dimerization interface [polypeptide binding]; other site 889378001489 allosteric effector site; other site 889378001490 fructose-1,6-bisphosphate binding site; other site 889378001491 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 889378001492 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 889378001493 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 889378001494 dimer interface [polypeptide binding]; other site 889378001495 phosphorylation site [posttranslational modification] 889378001496 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 889378001497 ATP binding site [chemical binding]; other site 889378001498 Mg2+ binding site [ion binding]; other site 889378001499 G-X-G motif; other site 889378001500 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 889378001501 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 889378001502 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 889378001503 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 889378001504 putative active site; other site 889378001505 catalytic triad [active] 889378001506 putative dimer interface [polypeptide binding]; other site 889378001507 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 889378001508 non-specific DNA binding site [nucleotide binding]; other site 889378001509 salt bridge; other site 889378001510 sequence-specific DNA binding site [nucleotide binding]; other site 889378001511 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 889378001512 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 889378001513 dimer interface [polypeptide binding]; other site 889378001514 phosphorylation site [posttranslational modification] 889378001515 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 889378001516 ATP binding site [chemical binding]; other site 889378001517 Mg2+ binding site [ion binding]; other site 889378001518 G-X-G motif; other site 889378001519 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 889378001520 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 889378001521 active site 889378001522 FMN binding site [chemical binding]; other site 889378001523 substrate binding site [chemical binding]; other site 889378001524 homotetramer interface [polypeptide binding]; other site 889378001525 catalytic residue [active] 889378001526 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 889378001527 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 889378001528 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 889378001529 substrate binding pocket [chemical binding]; other site 889378001530 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 889378001531 B12 binding site [chemical binding]; other site 889378001532 cobalt ligand [ion binding]; other site 889378001533 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 889378001534 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 889378001535 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 889378001536 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 889378001537 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 889378001538 Walker A/P-loop; other site 889378001539 ATP binding site [chemical binding]; other site 889378001540 Q-loop/lid; other site 889378001541 ABC transporter signature motif; other site 889378001542 Walker B; other site 889378001543 D-loop; other site 889378001544 H-loop/switch region; other site 889378001545 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 889378001546 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 889378001547 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 889378001548 Walker A/P-loop; other site 889378001549 ATP binding site [chemical binding]; other site 889378001550 Q-loop/lid; other site 889378001551 ABC transporter signature motif; other site 889378001552 Walker B; other site 889378001553 D-loop; other site 889378001554 H-loop/switch region; other site 889378001555 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 889378001556 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 889378001557 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 889378001558 dimer interface [polypeptide binding]; other site 889378001559 conserved gate region; other site 889378001560 putative PBP binding loops; other site 889378001561 ABC-ATPase subunit interface; other site 889378001562 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 889378001563 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 889378001564 dimer interface [polypeptide binding]; other site 889378001565 conserved gate region; other site 889378001566 putative PBP binding loops; other site 889378001567 ABC-ATPase subunit interface; other site 889378001568 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 889378001569 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 889378001570 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 889378001571 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 889378001572 Walker A/P-loop; other site 889378001573 ATP binding site [chemical binding]; other site 889378001574 Q-loop/lid; other site 889378001575 ABC transporter signature motif; other site 889378001576 Walker B; other site 889378001577 D-loop; other site 889378001578 H-loop/switch region; other site 889378001579 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 889378001580 Permease; Region: Permease; pfam02405 889378001581 Protein of unknown function (DUF330); Region: DUF330; pfam03886 889378001582 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 889378001583 mce related protein; Region: MCE; pfam02470 889378001584 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 889378001585 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 889378001586 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 889378001587 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 889378001588 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 889378001589 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 889378001590 catalytic residues [active] 889378001591 PAS domain; Region: PAS_9; pfam13426 889378001592 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 889378001593 PAS fold; Region: PAS_3; pfam08447 889378001594 putative active site [active] 889378001595 heme pocket [chemical binding]; other site 889378001596 PAS domain; Region: PAS_9; pfam13426 889378001597 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 889378001598 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 889378001599 dimer interface [polypeptide binding]; other site 889378001600 phosphorylation site [posttranslational modification] 889378001601 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 889378001602 ATP binding site [chemical binding]; other site 889378001603 Mg2+ binding site [ion binding]; other site 889378001604 G-X-G motif; other site 889378001605 Transcriptional regulators [Transcription]; Region: PurR; COG1609 889378001606 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 889378001607 DNA binding site [nucleotide binding] 889378001608 domain linker motif; other site 889378001609 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 889378001610 Predicted membrane protein [Function unknown]; Region: COG1288 889378001611 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 889378001612 hypothetical protein; Provisional; Region: PRK08262 889378001613 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 889378001614 metal binding site [ion binding]; metal-binding site 889378001615 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 889378001616 TrkA-N domain; Region: TrkA_N; pfam02254 889378001617 TrkA-C domain; Region: TrkA_C; pfam02080 889378001618 TrkA-N domain; Region: TrkA_N; pfam02254 889378001619 TrkA-C domain; Region: TrkA_C; pfam02080 889378001620 Cation transport protein; Region: TrkH; cl17365 889378001621 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 889378001622 Surface antigen; Region: Bac_surface_Ag; pfam01103 889378001623 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 889378001624 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 889378001625 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 889378001626 FeoA domain; Region: FeoA; pfam04023 889378001627 Smr domain; Region: Smr; pfam01713 889378001628 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 889378001629 dimerization domain swap beta strand [polypeptide binding]; other site 889378001630 regulatory protein interface [polypeptide binding]; other site 889378001631 active site 889378001632 regulatory phosphorylation site [posttranslational modification]; other site 889378001633 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 889378001634 putative binding surface; other site 889378001635 active site 889378001636 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 889378001637 Glycogen synthase; Region: Glycogen_syn; pfam05693 889378001638 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 889378001639 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 889378001640 ketol-acid reductoisomerase; Validated; Region: PRK05225 889378001641 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 889378001642 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 889378001643 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 889378001644 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 889378001645 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 889378001646 Cl- selectivity filter; other site 889378001647 Cl- binding residues [ion binding]; other site 889378001648 pore gating glutamate residue; other site 889378001649 dimer interface [polypeptide binding]; other site 889378001650 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 889378001651 phosphoglyceromutase; Provisional; Region: PRK05434 889378001652 Protein of unknown function (DUF342); Region: DUF342; pfam03961 889378001653 Tail length tape measure protein; Region: Phage_HK97_TLTM; pfam06120 889378001654 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 889378001655 ferredoxin; Validated; Region: PRK07118 889378001656 Putative Fe-S cluster; Region: FeS; cl17515 889378001657 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; cl14655 889378001658 4Fe-4S binding domain; Region: Fer4; pfam00037 889378001659 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 889378001660 SLBB domain; Region: SLBB; pfam10531 889378001661 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 889378001662 FMN-binding domain; Region: FMN_bind; cl01081 889378001663 electron transport complex RsxE subunit; Provisional; Region: PRK12405 889378001664 electron transport complex, RnfABCDGE type, A subunit; Region: rnfA; TIGR01943 889378001665 High-affinity nickel-transport protein; Region: NicO; cl00964 889378001666 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 889378001667 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 889378001668 phosphate binding site [ion binding]; other site 889378001669 flavodoxin FldA; Validated; Region: PRK09267 889378001670 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, alpha subunit [Energy production and conversion]; Region: PorA; COG0674 889378001671 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 889378001672 dimer interface [polypeptide binding]; other site 889378001673 PYR/PP interface [polypeptide binding]; other site 889378001674 TPP binding site [chemical binding]; other site 889378001675 substrate binding site [chemical binding]; other site 889378001676 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 889378001677 Domain of unknown function; Region: EKR; cl11037 889378001678 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 889378001679 TPP-binding site [chemical binding]; other site 889378001680 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 889378001681 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 889378001682 phosphate binding site [ion binding]; other site 889378001683 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 889378001684 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 889378001685 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 889378001686 putative homodimer interface [polypeptide binding]; other site 889378001687 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 889378001688 heterodimer interface [polypeptide binding]; other site 889378001689 homodimer interface [polypeptide binding]; other site 889378001690 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 889378001691 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 889378001692 23S rRNA interface [nucleotide binding]; other site 889378001693 L7/L12 interface [polypeptide binding]; other site 889378001694 putative thiostrepton binding site; other site 889378001695 L25 interface [polypeptide binding]; other site 889378001696 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 889378001697 mRNA/rRNA interface [nucleotide binding]; other site 889378001698 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 889378001699 23S rRNA interface [nucleotide binding]; other site 889378001700 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 889378001701 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 889378001702 core dimer interface [polypeptide binding]; other site 889378001703 peripheral dimer interface [polypeptide binding]; other site 889378001704 L10 interface [polypeptide binding]; other site 889378001705 L11 interface [polypeptide binding]; other site 889378001706 putative EF-Tu interaction site [polypeptide binding]; other site 889378001707 putative EF-G interaction site [polypeptide binding]; other site 889378001708 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 889378001709 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 889378001710 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 889378001711 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 889378001712 RPB1 interaction site [polypeptide binding]; other site 889378001713 RPB10 interaction site [polypeptide binding]; other site 889378001714 RPB11 interaction site [polypeptide binding]; other site 889378001715 RPB3 interaction site [polypeptide binding]; other site 889378001716 RPB12 interaction site [polypeptide binding]; other site 889378001717 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 889378001718 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 889378001719 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 889378001720 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 889378001721 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 889378001722 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 889378001723 cleft; other site 889378001724 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 889378001725 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 889378001726 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 889378001727 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 889378001728 DNA binding site [nucleotide binding] 889378001729 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 889378001730 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 889378001731 S17 interaction site [polypeptide binding]; other site 889378001732 S8 interaction site; other site 889378001733 16S rRNA interaction site [nucleotide binding]; other site 889378001734 streptomycin interaction site [chemical binding]; other site 889378001735 23S rRNA interaction site [nucleotide binding]; other site 889378001736 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 889378001737 30S ribosomal protein S7; Validated; Region: PRK05302 889378001738 elongation factor Tu; Reviewed; Region: PRK00049 889378001739 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 889378001740 G1 box; other site 889378001741 GEF interaction site [polypeptide binding]; other site 889378001742 GTP/Mg2+ binding site [chemical binding]; other site 889378001743 Switch I region; other site 889378001744 G2 box; other site 889378001745 G3 box; other site 889378001746 Switch II region; other site 889378001747 G4 box; other site 889378001748 G5 box; other site 889378001749 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 889378001750 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 889378001751 Antibiotic Binding Site [chemical binding]; other site 889378001752 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 889378001753 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 889378001754 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 889378001755 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 889378001756 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 889378001757 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 889378001758 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 889378001759 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 889378001760 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 889378001761 putative translocon binding site; other site 889378001762 protein-rRNA interface [nucleotide binding]; other site 889378001763 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 889378001764 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 889378001765 G-X-X-G motif; other site 889378001766 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 889378001767 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 889378001768 23S rRNA interface [nucleotide binding]; other site 889378001769 5S rRNA interface [nucleotide binding]; other site 889378001770 putative antibiotic binding site [chemical binding]; other site 889378001771 L25 interface [polypeptide binding]; other site 889378001772 L27 interface [polypeptide binding]; other site 889378001773 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 889378001774 23S rRNA interface [nucleotide binding]; other site 889378001775 putative translocon interaction site; other site 889378001776 signal recognition particle (SRP54) interaction site; other site 889378001777 L23 interface [polypeptide binding]; other site 889378001778 trigger factor interaction site; other site 889378001779 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 889378001780 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 889378001781 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 889378001782 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 889378001783 RNA binding site [nucleotide binding]; other site 889378001784 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 889378001785 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 889378001786 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 889378001787 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 889378001788 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 889378001789 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 889378001790 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 889378001791 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 889378001792 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 889378001793 23S rRNA interface [nucleotide binding]; other site 889378001794 5S rRNA interface [nucleotide binding]; other site 889378001795 L27 interface [polypeptide binding]; other site 889378001796 L5 interface [polypeptide binding]; other site 889378001797 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 889378001798 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 889378001799 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 889378001800 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 889378001801 23S rRNA binding site [nucleotide binding]; other site 889378001802 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 889378001803 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 889378001804 SecY translocase; Region: SecY; pfam00344 889378001805 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 889378001806 30S ribosomal protein S13; Region: bact_S13; TIGR03631 889378001807 30S ribosomal protein S11; Validated; Region: PRK05309 889378001808 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 889378001809 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 889378001810 alphaNTD homodimer interface [polypeptide binding]; other site 889378001811 alphaNTD - beta interaction site [polypeptide binding]; other site 889378001812 alphaNTD - beta' interaction site [polypeptide binding]; other site 889378001813 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 889378001814 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 889378001815 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 889378001816 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 889378001817 RNA/DNA hybrid binding site [nucleotide binding]; other site 889378001818 active site 889378001819 Mg chelatase-related protein; Region: TIGR00368 889378001820 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 889378001821 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 889378001822 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 889378001823 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 889378001824 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 889378001825 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 889378001826 protein binding site [polypeptide binding]; other site 889378001827 excinuclease ABC subunit B; Provisional; Region: PRK05298 889378001828 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 889378001829 ATP binding site [chemical binding]; other site 889378001830 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 889378001831 nucleotide binding region [chemical binding]; other site 889378001832 ATP-binding site [chemical binding]; other site 889378001833 Ultra-violet resistance protein B; Region: UvrB; pfam12344 889378001834 UvrB/uvrC motif; Region: UVR; pfam02151 889378001835 Protein of unknown function (DUF445); Region: DUF445; pfam04286 889378001836 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 889378001837 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 889378001838 active site 889378001839 homodimer interface [polypeptide binding]; other site 889378001840 Colicin V production protein; Region: Colicin_V; pfam02674 889378001841 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 889378001842 DNA polymerase III subunit delta'; Validated; Region: PRK08485 889378001843 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 889378001844 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 889378001845 putative active site [active] 889378001846 heme pocket [chemical binding]; other site 889378001847 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 889378001848 dimer interface [polypeptide binding]; other site 889378001849 phosphorylation site [posttranslational modification] 889378001850 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 889378001851 ATP binding site [chemical binding]; other site 889378001852 Mg2+ binding site [ion binding]; other site 889378001853 G-X-G motif; other site 889378001854 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 889378001855 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 889378001856 active site 889378001857 phosphorylation site [posttranslational modification] 889378001858 intermolecular recognition site; other site 889378001859 dimerization interface [polypeptide binding]; other site 889378001860 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 889378001861 Walker A motif; other site 889378001862 ATP binding site [chemical binding]; other site 889378001863 Walker B motif; other site 889378001864 arginine finger; other site 889378001865 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 889378001866 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 889378001867 HSP70 interaction site [polypeptide binding]; other site 889378001868 aspartate kinase III; Validated; Region: PRK09084 889378001869 AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such...; Region: AAK_AK-HSDH-like; cd04243 889378001870 putative catalytic residues [active] 889378001871 nucleotide binding site [chemical binding]; other site 889378001872 aspartate binding site [chemical binding]; other site 889378001873 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC-like_1; cd04912 889378001874 dimer interface [polypeptide binding]; other site 889378001875 allosteric regulatory binding pocket; other site 889378001876 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 889378001877 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 889378001878 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 889378001879 Bacitracin resistance protein BacA; Region: BacA; pfam02673 889378001880 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 889378001881 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 889378001882 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 889378001883 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 889378001884 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 889378001885 oligomerisation interface [polypeptide binding]; other site 889378001886 mobile loop; other site 889378001887 roof hairpin; other site 889378001888 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 889378001889 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 889378001890 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 889378001891 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 889378001892 DNA binding residues [nucleotide binding] 889378001893 Flagellar motor switch protein [Cell motility and secretion]; Region: FliG; COG1536 889378001894 FliG C-terminal domain; Region: FliG_C; pfam01706 889378001895 TM2 domain; Region: TM2; cl00984 889378001896 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 889378001897 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 889378001898 Coenzyme A binding pocket [chemical binding]; other site 889378001899 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 889378001900 Coenzyme A binding pocket [chemical binding]; other site 889378001901 Response regulator receiver domain; Region: Response_reg; pfam00072 889378001902 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 889378001903 active site 889378001904 phosphorylation site [posttranslational modification] 889378001905 intermolecular recognition site; other site 889378001906 dimerization interface [polypeptide binding]; other site 889378001907 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 889378001908 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 889378001909 ammonium transporter; Region: amt; TIGR00836 889378001910 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 889378001911 putative binding surface; other site 889378001912 active site 889378001913 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 889378001914 ATP binding site [chemical binding]; other site 889378001915 Mg2+ binding site [ion binding]; other site 889378001916 G-X-G motif; other site 889378001917 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 889378001918 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 889378001919 ABC-ATPase subunit interface; other site 889378001920 dimer interface [polypeptide binding]; other site 889378001921 putative PBP binding regions; other site 889378001922 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 889378001923 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 889378001924 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 889378001925 NADH(P)-binding; Region: NAD_binding_10; pfam13460 889378001926 NAD(P) binding site [chemical binding]; other site 889378001927 putative active site [active] 889378001928 DNA polymerase type-B family; Region: POLBc; smart00486 889378001929 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 889378001930 active site 889378001931 catalytic site [active] 889378001932 substrate binding site [chemical binding]; other site 889378001933 DNA polymerase family B; Region: DNA_pol_B; pfam00136 889378001934 DNA polymerase type-B family catalytic domain. DNA-directed DNA polymerases elongate DNA by adding nucleotide triphosphate (dNTP) residues to the 5'-end of the growing chain of DNA. DNA-directed DNA polymerases are multifunctional with both...; Region: POLBc; cl10023 889378001935 active site 889378001936 metal-binding site 889378001937 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 889378001938 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 889378001939 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 889378001940 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 889378001941 ligand binding site [chemical binding]; other site 889378001942 flexible hinge region; other site 889378001943 CAAX protease self-immunity; Region: Abi; pfam02517 889378001944 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 889378001945 trimer interface [polypeptide binding]; other site 889378001946 active site 889378001947 substrate binding site [chemical binding]; other site 889378001948 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 889378001949 Fn3 associated; Region: Fn3_assoc; pfam13287 889378001950 Peptidase M30; Region: Peptidase_M30; pfam10460 889378001951 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 889378001952 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 889378001953 active site 889378001954 intersubunit interface [polypeptide binding]; other site 889378001955 zinc binding site [ion binding]; other site 889378001956 Na+ binding site [ion binding]; other site 889378001957 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 889378001958 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 889378001959 arsenical-resistance protein; Region: acr3; TIGR00832 889378001960 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 889378001961 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 889378001962 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 889378001963 Secretory lipase; Region: LIP; pfam03583 889378001964 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 889378001965 Secretory lipase; Region: LIP; pfam03583 889378001966 Alginate O-acetyl transferase AlgF; Region: AlgF; pfam11182 889378001967 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 889378001968 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 889378001969 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 889378001970 Walker A/P-loop; other site 889378001971 ATP binding site [chemical binding]; other site 889378001972 Q-loop/lid; other site 889378001973 ABC transporter signature motif; other site 889378001974 Walker B; other site 889378001975 D-loop; other site 889378001976 H-loop/switch region; other site 889378001977 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 889378001978 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 889378001979 dimer interface [polypeptide binding]; other site 889378001980 conserved gate region; other site 889378001981 putative PBP binding loops; other site 889378001982 ABC-ATPase subunit interface; other site 889378001983 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 889378001984 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 889378001985 dimer interface [polypeptide binding]; other site 889378001986 conserved gate region; other site 889378001987 putative PBP binding loops; other site 889378001988 ABC-ATPase subunit interface; other site 889378001989 PBP superfamily domain; Region: PBP_like_2; cl17296 889378001990 PBP superfamily domain; Region: PBP_like_2; cl17296 889378001991 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 889378001992 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 889378001993 ABC-ATPase subunit interface; other site 889378001994 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 889378001995 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 889378001996 dimer interface [polypeptide binding]; other site 889378001997 conserved gate region; other site 889378001998 putative PBP binding loops; other site 889378001999 ABC-ATPase subunit interface; other site 889378002000 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 889378002001 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 889378002002 Walker A/P-loop; other site 889378002003 ATP binding site [chemical binding]; other site 889378002004 Q-loop/lid; other site 889378002005 ABC transporter signature motif; other site 889378002006 Walker B; other site 889378002007 D-loop; other site 889378002008 H-loop/switch region; other site 889378002009 Fic family protein [Function unknown]; Region: COG3177 889378002010 PhoU domain; Region: PhoU; pfam01895 889378002011 PBP superfamily domain; Region: PBP_like_2; cl17296 889378002012 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 889378002013 dimerization interface [polypeptide binding]; other site 889378002014 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 889378002015 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; cl02459 889378002016 putative active site [active] 889378002017 heme pocket [chemical binding]; other site 889378002018 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 889378002019 dimer interface [polypeptide binding]; other site 889378002020 phosphorylation site [posttranslational modification] 889378002021 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 889378002022 ATP binding site [chemical binding]; other site 889378002023 G-X-G motif; other site 889378002024 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 889378002025 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 889378002026 active site 889378002027 phosphorylation site [posttranslational modification] 889378002028 intermolecular recognition site; other site 889378002029 dimerization interface [polypeptide binding]; other site 889378002030 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 889378002031 DNA binding site [nucleotide binding] 889378002032 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 889378002033 PhoU domain; Region: PhoU; pfam01895 889378002034 PhoU domain; Region: PhoU; pfam01895 889378002035 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 889378002036 putative active site [active] 889378002037 putative metal binding site [ion binding]; other site 889378002038 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 889378002039 arginine decarboxylase; Provisional; Region: PRK05354 889378002040 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 889378002041 dimer interface [polypeptide binding]; other site 889378002042 active site 889378002043 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 889378002044 catalytic residues [active] 889378002045 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 889378002046 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 889378002047 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 889378002048 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 889378002049 dimer interface [polypeptide binding]; other site 889378002050 active site 889378002051 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 889378002052 catalytic residues [active] 889378002053 substrate binding site [chemical binding]; other site 889378002054 AAK_UMPK-PyrH-Pf: UMP kinase (UMPK)-Pf, the mostly archaeal uridine monophosphate kinase (uridylate kinase) enzymes that catalyze UMP phosphorylation and play a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back...; Region: AAK_UMPK-PyrH-Pf; cd04253 889378002055 nucleotide binding site [chemical binding]; other site 889378002056 homodimeric interface [polypeptide binding]; other site 889378002057 uridine monophosphate binding site [chemical binding]; other site 889378002058 UvrB/uvrC motif; Region: UVR; pfam02151 889378002059 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 889378002060 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 889378002061 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 889378002062 non-specific DNA binding site [nucleotide binding]; other site 889378002063 salt bridge; other site 889378002064 sequence-specific DNA binding site [nucleotide binding]; other site 889378002065 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 889378002066 Part of AAA domain; Region: AAA_19; pfam13245 889378002067 Family description; Region: UvrD_C_2; pfam13538 889378002068 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 889378002069 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 889378002070 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 889378002071 23S rRNA interface [nucleotide binding]; other site 889378002072 L3 interface [polypeptide binding]; other site 889378002073 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 889378002074 recombination regulator RecX; Reviewed; Region: recX; PRK00117 889378002075 Helix-turn-helix domain; Region: HTH_17; pfam12728 889378002076 Response regulator receiver domain; Region: Response_reg; pfam00072 889378002077 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 889378002078 active site 889378002079 phosphorylation site [posttranslational modification] 889378002080 intermolecular recognition site; other site 889378002081 dimerization interface [polypeptide binding]; other site 889378002082 Response regulator receiver domain; Region: Response_reg; pfam00072 889378002083 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 889378002084 active site 889378002085 phosphorylation site [posttranslational modification] 889378002086 intermolecular recognition site; other site 889378002087 dimerization interface [polypeptide binding]; other site 889378002088 enolase; Provisional; Region: eno; PRK00077 889378002089 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 889378002090 dimer interface [polypeptide binding]; other site 889378002091 metal binding site [ion binding]; metal-binding site 889378002092 substrate binding pocket [chemical binding]; other site 889378002093 prolyl-tRNA synthetase; Provisional; Region: PRK09194 889378002094 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 889378002095 motif 1; other site 889378002096 dimer interface [polypeptide binding]; other site 889378002097 active site 889378002098 motif 2; other site 889378002099 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 889378002100 putative deacylase active site [active] 889378002101 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 889378002102 active site 889378002103 motif 3; other site 889378002104 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 889378002105 anticodon binding site; other site 889378002106 Uncharacterized protein family (UPF0158); Region: UPF0158; pfam03682 889378002107 Phosphate acyltransferases; Region: PlsC; smart00563 889378002108 putative acyl-acceptor binding pocket; other site 889378002109 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 889378002110 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 889378002111 binding surface 889378002112 TPR motif; other site 889378002113 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 889378002114 TPR motif; other site 889378002115 binding surface 889378002116 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 889378002117 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 889378002118 homodimer interface [polypeptide binding]; other site 889378002119 substrate-cofactor binding pocket; other site 889378002120 catalytic residue [active] 889378002121 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 889378002122 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 889378002123 Substrate binding site; other site 889378002124 Cupin domain; Region: Cupin_2; cl17218 889378002125 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 889378002126 active site 889378002127 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 889378002128 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 889378002129 active site 889378002130 catalytic triad [active] 889378002131 Transcriptional regulators [Transcription]; Region: PurR; COG1609 889378002132 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 889378002133 DNA binding site [nucleotide binding] 889378002134 domain linker motif; other site 889378002135 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 889378002136 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 889378002137 active site 889378002138 phosphorylation site [posttranslational modification] 889378002139 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 889378002140 dimerization domain swap beta strand [polypeptide binding]; other site 889378002141 regulatory protein interface [polypeptide binding]; other site 889378002142 active site 889378002143 regulatory phosphorylation site [posttranslational modification]; other site 889378002144 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 889378002145 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 889378002146 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 889378002147 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 889378002148 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 889378002149 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 889378002150 putative substrate binding site [chemical binding]; other site 889378002151 putative ATP binding site [chemical binding]; other site 889378002152 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 889378002153 active site 889378002154 P-loop; other site 889378002155 phosphorylation site [posttranslational modification] 889378002156 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 889378002157 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 889378002158 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 889378002159 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 889378002160 dimerization interface [polypeptide binding]; other site 889378002161 domain crossover interface; other site 889378002162 redox-dependent activation switch; other site 889378002163 4-alpha-glucanotransferase; Provisional; Region: PRK14508 889378002164 trehalose synthase; Region: treS_nterm; TIGR02456 889378002165 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 889378002166 active site 889378002167 catalytic site [active] 889378002168 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 889378002169 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 889378002170 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 889378002171 active site 889378002172 catalytic site [active] 889378002173 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 889378002174 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 889378002175 homodimer interface [polypeptide binding]; other site 889378002176 active site pocket [active] 889378002177 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 889378002178 MgtC family; Region: MgtC; pfam02308 889378002179 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 889378002180 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 889378002181 WHG domain; Region: WHG; pfam13305 889378002182 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 889378002183 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 889378002184 FAD binding pocket [chemical binding]; other site 889378002185 conserved FAD binding motif [chemical binding]; other site 889378002186 phosphate binding motif [ion binding]; other site 889378002187 beta-alpha-beta structure motif; other site 889378002188 NAD binding pocket [chemical binding]; other site 889378002189 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 889378002190 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 889378002191 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 889378002192 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 889378002193 dimer interface [polypeptide binding]; other site 889378002194 conserved gate region; other site 889378002195 putative PBP binding loops; other site 889378002196 ABC-ATPase subunit interface; other site 889378002197 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 889378002198 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 889378002199 dimer interface [polypeptide binding]; other site 889378002200 conserved gate region; other site 889378002201 putative PBP binding loops; other site 889378002202 ABC-ATPase subunit interface; other site 889378002203 N-terminal-like domain of Paenibacillus sp. YM-1 Laminaribiose Phosphorylase and similar proteins; Region: GH94N_LBP_like; cd11749 889378002204 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 889378002205 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 889378002206 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 889378002207 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 889378002208 active site 889378002209 catalytic residues [active] 889378002210 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 889378002211 putative DNA binding site [nucleotide binding]; other site 889378002212 putative Zn2+ binding site [ion binding]; other site 889378002213 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 889378002214 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 889378002215 Alpha amylase catalytic domain found in Amylosucrase; Region: AmyAc_Amylosucrase; cd11324 889378002216 trehalose synthase; Region: treS_nterm; TIGR02456 889378002217 active site 889378002218 catalytic site [active] 889378002219 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 889378002220 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 889378002221 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 889378002222 Response regulator receiver domain; Region: Response_reg; pfam00072 889378002223 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 889378002224 active site 889378002225 phosphorylation site [posttranslational modification] 889378002226 intermolecular recognition site; other site 889378002227 dimerization interface [polypeptide binding]; other site 889378002228 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 889378002229 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 889378002230 metal binding site [ion binding]; metal-binding site 889378002231 active site 889378002232 I-site; other site 889378002233 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 889378002234 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 889378002235 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 889378002236 putative active site [active] 889378002237 heme pocket [chemical binding]; other site 889378002238 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 889378002239 dimer interface [polypeptide binding]; other site 889378002240 phosphorylation site [posttranslational modification] 889378002241 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 889378002242 ATP binding site [chemical binding]; other site 889378002243 Mg2+ binding site [ion binding]; other site 889378002244 G-X-G motif; other site 889378002245 threonine dehydratase; Reviewed; Region: PRK09224 889378002246 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 889378002247 tetramer interface [polypeptide binding]; other site 889378002248 pyridoxal 5'-phosphate binding site [chemical binding]; other site 889378002249 catalytic residue [active] 889378002250 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 889378002251 putative Ile/Val binding site [chemical binding]; other site 889378002252 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 889378002253 putative Ile/Val binding site [chemical binding]; other site 889378002254 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 889378002255 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 889378002256 substrate binding pocket [chemical binding]; other site 889378002257 membrane-bound complex binding site; other site 889378002258 hinge residues; other site 889378002259 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 889378002260 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 889378002261 dimer interface [polypeptide binding]; other site 889378002262 conserved gate region; other site 889378002263 putative PBP binding loops; other site 889378002264 ABC-ATPase subunit interface; other site 889378002265 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 889378002266 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 889378002267 Walker A/P-loop; other site 889378002268 ATP binding site [chemical binding]; other site 889378002269 Q-loop/lid; other site 889378002270 ABC transporter signature motif; other site 889378002271 Walker B; other site 889378002272 D-loop; other site 889378002273 H-loop/switch region; other site 889378002274 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 889378002275 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 889378002276 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 889378002277 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 889378002278 active site residue [active] 889378002279 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 889378002280 active site residue [active] 889378002281 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 889378002282 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 889378002283 Soluble P-type ATPase [General function prediction only]; Region: COG4087 889378002284 ferric uptake regulator; Provisional; Region: fur; PRK09462 889378002285 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 889378002286 metal binding site 2 [ion binding]; metal-binding site 889378002287 putative DNA binding helix; other site 889378002288 metal binding site 1 [ion binding]; metal-binding site 889378002289 dimer interface [polypeptide binding]; other site 889378002290 structural Zn2+ binding site [ion binding]; other site 889378002291 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 889378002292 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 889378002293 metal binding site [ion binding]; metal-binding site 889378002294 active site 889378002295 I-site; other site 889378002296 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 889378002297 Domain of unknown function (DUF1287); Region: DUF1287; cl01519 889378002298 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 889378002299 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 889378002300 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 889378002301 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 889378002302 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 889378002303 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 889378002304 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 889378002305 dimer interface [polypeptide binding]; other site 889378002306 putative CheW interface [polypeptide binding]; other site 889378002307 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 889378002308 metal binding site [ion binding]; metal-binding site 889378002309 active site 889378002310 I-site; other site 889378002311 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 889378002312 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 889378002313 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 889378002314 dimer interface [polypeptide binding]; other site 889378002315 phosphorylation site [posttranslational modification] 889378002316 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 889378002317 ATP binding site [chemical binding]; other site 889378002318 Mg2+ binding site [ion binding]; other site 889378002319 G-X-G motif; other site 889378002320 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 889378002321 Response regulator receiver domain; Region: Response_reg; pfam00072 889378002322 active site 889378002323 phosphorylation site [posttranslational modification] 889378002324 intermolecular recognition site; other site 889378002325 dimerization interface [polypeptide binding]; other site 889378002326 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 889378002327 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 889378002328 active site 889378002329 phosphorylation site [posttranslational modification] 889378002330 intermolecular recognition site; other site 889378002331 dimerization interface [polypeptide binding]; other site 889378002332 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; cl00086 889378002333 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 889378002334 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 889378002335 substrate binding pocket [chemical binding]; other site 889378002336 membrane-bound complex binding site; other site 889378002337 hinge residues; other site 889378002338 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 889378002339 PAS domain; Region: PAS_9; pfam13426 889378002340 putative active site [active] 889378002341 heme pocket [chemical binding]; other site 889378002342 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 889378002343 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 889378002344 dimer interface [polypeptide binding]; other site 889378002345 phosphorylation site [posttranslational modification] 889378002346 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 889378002347 ATP binding site [chemical binding]; other site 889378002348 Mg2+ binding site [ion binding]; other site 889378002349 G-X-G motif; other site 889378002350 Response regulator receiver domain; Region: Response_reg; pfam00072 889378002351 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 889378002352 active site 889378002353 phosphorylation site [posttranslational modification] 889378002354 intermolecular recognition site; other site 889378002355 dimerization interface [polypeptide binding]; other site 889378002356 Uncharacterized protein conserved in bacteria (DUF2316); Region: DUF2316; cl01805 889378002357 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 889378002358 FecR protein; Region: FecR; pfam04773 889378002359 PAS domain; Region: PAS_9; pfam13426 889378002360 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 889378002361 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 889378002362 metal binding site [ion binding]; metal-binding site 889378002363 active site 889378002364 I-site; other site 889378002365 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 889378002366 ATP cone domain; Region: ATP-cone; pfam03477 889378002367 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 889378002368 dimer interface [polypeptide binding]; other site 889378002369 putative radical transfer pathway; other site 889378002370 diiron center [ion binding]; other site 889378002371 tyrosyl radical; other site 889378002372 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 889378002373 Class I ribonucleotide reductase; Region: RNR_I; cd01679 889378002374 active site 889378002375 dimer interface [polypeptide binding]; other site 889378002376 catalytic residues [active] 889378002377 effector binding site; other site 889378002378 R2 peptide binding site; other site 889378002379 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 889378002380 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 889378002381 N-terminal plug; other site 889378002382 ligand-binding site [chemical binding]; other site 889378002383 Uncharacterized conserved protein [Function unknown]; Region: COG3391 889378002384 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 889378002385 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 889378002386 Protein of unknown function (DUF429); Region: DUF429; cl12046 889378002387 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 889378002388 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 889378002389 Walker A/P-loop; other site 889378002390 ATP binding site [chemical binding]; other site 889378002391 Q-loop/lid; other site 889378002392 ABC transporter signature motif; other site 889378002393 Walker B; other site 889378002394 D-loop; other site 889378002395 H-loop/switch region; other site 889378002396 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 889378002397 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 889378002398 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 889378002399 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 889378002400 catalytic residue [active] 889378002401 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 889378002402 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 889378002403 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 889378002404 active site 889378002405 phosphorylation site [posttranslational modification] 889378002406 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 889378002407 Flavoprotein; Region: Flavoprotein; pfam02441 889378002408 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 889378002409 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 889378002410 active site 889378002411 NTP binding site [chemical binding]; other site 889378002412 metal binding triad [ion binding]; metal-binding site 889378002413 Transposase, Mutator family; Region: Transposase_mut; pfam00872 889378002414 MULE transposase domain; Region: MULE; pfam10551 889378002415 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 889378002416 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 889378002417 Methyltransferase domain; Region: Methyltransf_11; pfam08241 889378002418 Acyl-CoA thioester hydrolase/BAAT N-terminal region; Region: Bile_Hydr_Trans; pfam04775 889378002419 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 889378002420 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 889378002421 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 889378002422 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 889378002423 putative active site [active] 889378002424 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 889378002425 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 889378002426 Walker A/P-loop; other site 889378002427 ATP binding site [chemical binding]; other site 889378002428 Q-loop/lid; other site 889378002429 ABC transporter signature motif; other site 889378002430 Walker B; other site 889378002431 D-loop; other site 889378002432 H-loop/switch region; other site 889378002433 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 889378002434 HlyD family secretion protein; Region: HlyD_3; pfam13437 889378002435 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 889378002436 active site 889378002437 NTP binding site [chemical binding]; other site 889378002438 metal binding triad [ion binding]; metal-binding site 889378002439 antibiotic binding site [chemical binding]; other site 889378002440 HEPN domain; Region: HEPN; cl00824 889378002441 Transposase, Mutator family; Region: Transposase_mut; pfam00872 889378002442 MULE transposase domain; Region: MULE; pfam10551 889378002443 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 889378002444 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 889378002445 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 889378002446 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 889378002447 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 889378002448 active site 889378002449 homodimer interface [polypeptide binding]; other site 889378002450 catalytic site [active] 889378002451 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 889378002452 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 889378002453 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 889378002454 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 889378002455 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 889378002456 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 889378002457 Catalytic site [active] 889378002458 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 889378002459 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 889378002460 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 889378002461 Peptidase family M23; Region: Peptidase_M23; pfam01551 889378002462 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 889378002463 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 889378002464 SEC-C motif; Region: SEC-C; pfam02810 889378002465 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 889378002466 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 889378002467 putative substrate binding site [chemical binding]; other site 889378002468 putative ATP binding site [chemical binding]; other site 889378002469 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 889378002470 active site 889378002471 8-oxo-dGMP binding site [chemical binding]; other site 889378002472 nudix motif; other site 889378002473 metal binding site [ion binding]; metal-binding site 889378002474 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK02862 889378002475 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 889378002476 ligand binding site; other site 889378002477 oligomer interface; other site 889378002478 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 889378002479 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 889378002480 N-terminal domain interface [polypeptide binding]; other site 889378002481 sulfate 1 binding site; other site 889378002482 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 889378002483 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 889378002484 ATP binding site [chemical binding]; other site 889378002485 putative Mg++ binding site [ion binding]; other site 889378002486 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 889378002487 nucleotide binding region [chemical binding]; other site 889378002488 ATP-binding site [chemical binding]; other site 889378002489 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 889378002490 RNase_H superfamily; Region: RNase_H_2; pfam13482 889378002491 active site 889378002492 substrate binding site [chemical binding]; other site 889378002493 glycogen synthase; Provisional; Region: glgA; PRK00654 889378002494 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 889378002495 ADP-binding pocket [chemical binding]; other site 889378002496 homodimer interface [polypeptide binding]; other site 889378002497 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 889378002498 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 889378002499 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 889378002500 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06665 889378002501 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 889378002502 flagellar hook-associated protein FlgL; Validated; Region: PRK06663 889378002503 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 889378002504 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 889378002505 flagellar assembly protein FliW; Provisional; Region: PRK13285 889378002506 carbon storage regulator; Provisional; Region: PRK01712 889378002507 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 889378002508 Glycoprotease family; Region: Peptidase_M22; pfam00814 889378002509 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 889378002510 Flagellar protein YcgR; Region: YcgR_2; pfam12945 889378002511 PilZ domain; Region: PilZ; pfam07238 889378002512 flagellar hook-associated protein FliD; Validated; Region: fliD; PRK06664 889378002513 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 889378002514 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 889378002515 FlaG protein; Region: FlaG; pfam03646 889378002516 flagellin; Provisional; Region: PRK12804 889378002517 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 889378002518 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 889378002519 flagellin; Provisional; Region: PRK12804 889378002520 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 889378002521 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 889378002522 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 889378002523 TPR motif; other site 889378002524 binding surface 889378002525 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 889378002526 binding surface 889378002527 TPR repeat; Region: TPR_11; pfam13414 889378002528 TPR motif; other site 889378002529 PilZ domain; Region: PilZ; pfam07238 889378002530 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 889378002531 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 889378002532 substrate binding site [chemical binding]; other site 889378002533 ATP binding site [chemical binding]; other site 889378002534 Cell division protein ZapA; Region: ZapA; pfam05164 889378002535 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 889378002536 23S rRNA binding site [nucleotide binding]; other site 889378002537 L21 binding site [polypeptide binding]; other site 889378002538 L13 binding site [polypeptide binding]; other site 889378002539 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 889378002540 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 889378002541 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 889378002542 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 889378002543 Flagellar filament outer layer protein Flaa; Region: FlaA; pfam04620 889378002544 Flagellar filament outer layer protein Flaa; Region: FlaA; pfam04620 889378002545 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 889378002546 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 889378002547 ligand binding site [chemical binding]; other site 889378002548 flexible hinge region; other site 889378002549 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 889378002550 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 889378002551 dimer interface [polypeptide binding]; other site 889378002552 phosphorylation site [posttranslational modification] 889378002553 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 889378002554 ATP binding site [chemical binding]; other site 889378002555 Mg2+ binding site [ion binding]; other site 889378002556 G-X-G motif; other site 889378002557 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 889378002558 active site 889378002559 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 889378002560 dimerization interface [polypeptide binding]; other site 889378002561 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 889378002562 dimer interface [polypeptide binding]; other site 889378002563 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 889378002564 putative CheW interface [polypeptide binding]; other site 889378002565 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 889378002566 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 889378002567 Malic enzyme, N-terminal domain; Region: malic; pfam00390 889378002568 Malic enzyme, NAD binding domain; Region: Malic_M; smart00919 889378002569 NAD(P) binding pocket [chemical binding]; other site 889378002570 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 889378002571 active site 889378002572 phosphorylation site [posttranslational modification] 889378002573 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 889378002574 dimerization interface [polypeptide binding]; other site 889378002575 active site 889378002576 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 889378002577 Part of AAA domain; Region: AAA_19; pfam13245 889378002578 Family description; Region: UvrD_C_2; pfam13538 889378002579 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 889378002580 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 889378002581 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 889378002582 active site 889378002583 substrate binding site [chemical binding]; other site 889378002584 metal binding site [ion binding]; metal-binding site 889378002585 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 889378002586 active site 889378002587 catalytic site [active] 889378002588 substrate binding site [chemical binding]; other site 889378002589 HEAT repeats; Region: HEAT_2; pfam13646 889378002590 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 889378002591 putative active site [active] 889378002592 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 889378002593 GAF domain; Region: GAF_3; pfam13492 889378002594 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 889378002595 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 889378002596 metal binding site [ion binding]; metal-binding site 889378002597 active site 889378002598 I-site; other site 889378002599 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 889378002600 dimer interface [polypeptide binding]; other site 889378002601 putative CheW interface [polypeptide binding]; other site 889378002602 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; cl02459 889378002603 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 889378002604 PAS domain; Region: PAS_9; pfam13426 889378002605 putative active site [active] 889378002606 heme pocket [chemical binding]; other site 889378002607 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 889378002608 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 889378002609 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 889378002610 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 889378002611 putative active site [active] 889378002612 heme pocket [chemical binding]; other site 889378002613 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 889378002614 putative active site [active] 889378002615 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 889378002616 heme pocket [chemical binding]; other site 889378002617 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 889378002618 dimer interface [polypeptide binding]; other site 889378002619 phosphorylation site [posttranslational modification] 889378002620 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 889378002621 ATP binding site [chemical binding]; other site 889378002622 Mg2+ binding site [ion binding]; other site 889378002623 G-X-G motif; other site 889378002624 Response regulator receiver domain; Region: Response_reg; pfam00072 889378002625 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 889378002626 active site 889378002627 phosphorylation site [posttranslational modification] 889378002628 intermolecular recognition site; other site 889378002629 dimerization interface [polypeptide binding]; other site 889378002630 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 889378002631 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 889378002632 WHG domain; Region: WHG; pfam13305 889378002633 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 889378002634 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 889378002635 substrate binding pocket [chemical binding]; other site 889378002636 membrane-bound complex binding site; other site 889378002637 hinge residues; other site 889378002638 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 889378002639 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 889378002640 dimer interface [polypeptide binding]; other site 889378002641 conserved gate region; other site 889378002642 putative PBP binding loops; other site 889378002643 ABC-ATPase subunit interface; other site 889378002644 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 889378002645 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 889378002646 Walker A/P-loop; other site 889378002647 ATP binding site [chemical binding]; other site 889378002648 Q-loop/lid; other site 889378002649 ABC transporter signature motif; other site 889378002650 Walker B; other site 889378002651 D-loop; other site 889378002652 H-loop/switch region; other site 889378002653 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 889378002654 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 889378002655 binding surface 889378002656 TPR motif; other site 889378002657 Tetratricopeptide repeat; Region: TPR_12; pfam13424 889378002658 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 889378002659 binding surface 889378002660 TPR motif; other site 889378002661 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 889378002662 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 889378002663 metal binding site [ion binding]; metal-binding site 889378002664 active site 889378002665 I-site; other site 889378002666 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 889378002667 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 889378002668 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 889378002669 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 889378002670 catalytic residues [active] 889378002671 PemK-like protein; Region: PemK; pfam02452 889378002672 Protein of unknown function (DUF2281); Region: DUF2281; cl02355 889378002673 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 889378002674 DNA polymerase III PolC; Validated; Region: polC; PRK00448 889378002675 Dehydratase family; Region: ILVD_EDD; cl00340 889378002676 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 889378002677 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 889378002678 ATP binding site [chemical binding]; other site 889378002679 Mg++ binding site [ion binding]; other site 889378002680 motif III; other site 889378002681 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 889378002682 nucleotide binding region [chemical binding]; other site 889378002683 ATP-binding site [chemical binding]; other site 889378002684 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 889378002685 RNA binding site [nucleotide binding]; other site 889378002686 Restriction endonuclease; Region: Mrr_cat; pfam04471 889378002687 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 889378002688 homodimer interface [polypeptide binding]; other site 889378002689 chemical substrate binding site [chemical binding]; other site 889378002690 oligomer interface [polypeptide binding]; other site 889378002691 metal binding site [ion binding]; metal-binding site 889378002692 GIY-YIG domain of uncharacterized bacterial protein structurally related to COG3410; Region: GIY-YIG_COG3410; cd10439 889378002693 GIY-YIG motif/motif A; other site 889378002694 putative active site [active] 889378002695 putative metal binding site [ion binding]; other site 889378002696 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 889378002697 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 889378002698 ATP binding site [chemical binding]; other site 889378002699 putative Mg++ binding site [ion binding]; other site 889378002700 Uncharacterized conserved protein [Function unknown]; Region: COG3410 889378002701 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 889378002702 active site 889378002703 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 889378002704 non-specific DNA binding site [nucleotide binding]; other site 889378002705 salt bridge; other site 889378002706 sequence-specific DNA binding site [nucleotide binding]; other site 889378002707 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 889378002708 Integrase core domain; Region: rve; pfam00665 889378002709 transposase/IS protein; Provisional; Region: PRK09183 889378002710 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 889378002711 Walker A motif; other site 889378002712 ATP binding site [chemical binding]; other site 889378002713 Walker B motif; other site 889378002714 Transposase, Mutator family; Region: Transposase_mut; pfam00872 889378002715 MULE transposase domain; Region: MULE; pfam10551 889378002716 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 889378002717 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 889378002718 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 889378002719 ATP binding site [chemical binding]; other site 889378002720 putative Mg++ binding site [ion binding]; other site 889378002721 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 889378002722 nucleotide binding region [chemical binding]; other site 889378002723 ATP-binding site [chemical binding]; other site 889378002724 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 889378002725 ParB-like nuclease domain; Region: ParB; smart00470 889378002726 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 889378002727 mismatch recognition site; other site 889378002728 additional DNA contacts [nucleotide binding]; other site 889378002729 active site 889378002730 zinc binding site [ion binding]; other site 889378002731 DNA intercalation site [nucleotide binding]; other site 889378002732 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 889378002733 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 889378002734 cofactor binding site; other site 889378002735 DNA binding site [nucleotide binding] 889378002736 substrate interaction site [chemical binding]; other site 889378002737 EVE domain; Region: EVE; cl00728 889378002738 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 889378002739 Protein of unknown function (DUF524); Region: DUF524; pfam04411 889378002740 Transposase, Mutator family; Region: Transposase_mut; pfam00872 889378002741 MULE transposase domain; Region: MULE; pfam10551 889378002742 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 889378002743 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 889378002744 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 889378002745 Zc3h12a-like Ribonuclease NYN domain; Region: RNase_Zc3h12a; pfam11977 889378002746 Protein of unknown function (DUF2283); Region: DUF2283; pfam10049 889378002747 HNH endonuclease; Region: HNH_4; pfam13395 889378002748 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 889378002749 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 889378002750 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 889378002751 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 889378002752 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 889378002753 active site 889378002754 catalytic site [active] 889378002755 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 889378002756 S-layer homology domain; Region: SLH; pfam00395 889378002757 S-layer homology domain; Region: SLH; pfam00395 889378002758 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 889378002759 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 889378002760 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 889378002761 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 889378002762 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 889378002763 Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]; Region: PflX; COG1313 889378002764 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 889378002765 FeS/SAM binding site; other site 889378002766 BCCT family transporter; Region: BCCT; pfam02028 889378002767 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 889378002768 putative dimer interface [polypeptide binding]; other site 889378002769 catalytic triad [active] 889378002770 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_1; cd01832 889378002771 active site 889378002772 catalytic triad [active] 889378002773 oxyanion hole [active] 889378002774 Rdx family; Region: Rdx; pfam10262 889378002775 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 889378002776 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 889378002777 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 889378002778 classical (c) SDRs; Region: SDR_c; cd05233 889378002779 NAD(P) binding site [chemical binding]; other site 889378002780 active site 889378002781 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 889378002782 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 889378002783 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 889378002784 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 889378002785 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 889378002786 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 889378002787 Walker B motif; other site 889378002788 arginine finger; other site 889378002789 HTH domain; Region: HTH_11; cl17392 889378002790 WYL domain; Region: WYL; pfam13280 889378002791 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 889378002792 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 889378002793 active site 889378002794 motif I; other site 889378002795 motif II; other site 889378002796 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 889378002797 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 889378002798 Major Facilitator Superfamily; Region: MFS_1; pfam07690 889378002799 putative substrate translocation pore; other site 889378002800 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 889378002801 PAS fold; Region: PAS_3; pfam08447 889378002802 putative active site [active] 889378002803 heme pocket [chemical binding]; other site 889378002804 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 889378002805 Histidine kinase; Region: HisKA_2; pfam07568 889378002806 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 889378002807 Mg2+ binding site [ion binding]; other site 889378002808 G-X-G motif; other site 889378002809 Putative motility protein; Region: YjfB_motility; pfam14070 889378002810 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 889378002811 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 889378002812 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 889378002813 PEGA domain; Region: PEGA; pfam08308 889378002814 PEGA domain; Region: PEGA; pfam08308 889378002815 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 889378002816 putative active site [active] 889378002817 putative metal binding residues [ion binding]; other site 889378002818 signature motif; other site 889378002819 putative triphosphate binding site [ion binding]; other site 889378002820 dimer interface [polypeptide binding]; other site 889378002821 MarC family integral membrane protein; Region: MarC; pfam01914 889378002822 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 889378002823 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 889378002824 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 889378002825 metal binding site [ion binding]; metal-binding site 889378002826 active site 889378002827 I-site; other site 889378002828 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 889378002829 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 889378002830 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 889378002831 catalytic residues [active] 889378002832 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 889378002833 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 889378002834 acyl-activating enzyme (AAE) consensus motif; other site 889378002835 putative AMP binding site [chemical binding]; other site 889378002836 putative active site [active] 889378002837 putative CoA binding site [chemical binding]; other site 889378002838 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 889378002839 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 889378002840 Na binding site [ion binding]; other site 889378002841 Major Facilitator Superfamily; Region: MFS_1; pfam07690 889378002842 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 889378002843 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 889378002844 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 889378002845 putative ADP-ribose binding site [chemical binding]; other site 889378002846 putative active site [active] 889378002847 Protein of unknown function DUF72; Region: DUF72; pfam01904 889378002848 Protein of unknown function DUF72; Region: DUF72; cl00777 889378002849 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 889378002850 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 889378002851 active site 889378002852 catalytic tetrad [active] 889378002853 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 889378002854 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 889378002855 FMN binding site [chemical binding]; other site 889378002856 dimer interface [polypeptide binding]; other site 889378002857 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 889378002858 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 889378002859 homodimer interface [polypeptide binding]; other site 889378002860 metal binding site [ion binding]; metal-binding site 889378002861 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 889378002862 homodimer interface [polypeptide binding]; other site 889378002863 active site 889378002864 putative chemical substrate binding site [chemical binding]; other site 889378002865 metal binding site [ion binding]; metal-binding site 889378002866 Domain of unknown function (DUF336); Region: DUF336; cl01249 889378002867 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 889378002868 Na2 binding site [ion binding]; other site 889378002869 putative substrate binding site 1 [chemical binding]; other site 889378002870 Na binding site 1 [ion binding]; other site 889378002871 putative substrate binding site 2 [chemical binding]; other site 889378002872 PilZ domain; Region: PilZ; pfam07238 889378002873 Cache domain; Region: Cache_1; pfam02743 889378002874 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 889378002875 cyclase homology domain; Region: CHD; cd07302 889378002876 nucleotidyl binding site; other site 889378002877 metal binding site [ion binding]; metal-binding site 889378002878 dimer interface [polypeptide binding]; other site 889378002879 Tetratricopeptide repeat; Region: TPR_16; pfam13432 889378002880 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 889378002881 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 889378002882 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 889378002883 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 889378002884 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 889378002885 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 889378002886 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 889378002887 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 889378002888 Carbohydrate Binding Module 6 (CBM6) domains; many are found in association with discoidin domain(s); Region: CBM6_discoidin-like; cd04083 889378002889 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 889378002890 ligand binding site [chemical binding]; other site 889378002891 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 889378002892 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 889378002893 dimer interface [polypeptide binding]; other site 889378002894 conserved gate region; other site 889378002895 putative PBP binding loops; other site 889378002896 ABC-ATPase subunit interface; other site 889378002897 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 889378002898 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 889378002899 dimer interface [polypeptide binding]; other site 889378002900 conserved gate region; other site 889378002901 putative PBP binding loops; other site 889378002902 ABC-ATPase subunit interface; other site 889378002903 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 889378002904 Protein of unknown function (DUF3316); Region: DUF3316; pfam11777 889378002905 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 889378002906 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 889378002907 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 889378002908 active site 889378002909 phosphorylation site [posttranslational modification] 889378002910 intermolecular recognition site; other site 889378002911 dimerization interface [polypeptide binding]; other site 889378002912 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 889378002913 DNA binding residues [nucleotide binding] 889378002914 dimerization interface [polypeptide binding]; other site 889378002915 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 889378002916 Histidine kinase; Region: HisKA_3; pfam07730 889378002917 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 889378002918 ATP binding site [chemical binding]; other site 889378002919 Mg2+ binding site [ion binding]; other site 889378002920 G-X-G motif; other site 889378002921 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 889378002922 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 889378002923 AAA ATPase domain; Region: AAA_16; pfam13191 889378002924 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 889378002925 TPR motif; other site 889378002926 binding surface 889378002927 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 889378002928 DNA binding residues [nucleotide binding] 889378002929 dimerization interface [polypeptide binding]; other site 889378002930 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 889378002931 Na binding site [ion binding]; other site 889378002932 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 889378002933 dimerization interface [polypeptide binding]; other site 889378002934 putative DNA binding site [nucleotide binding]; other site 889378002935 putative Zn2+ binding site [ion binding]; other site 889378002936 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 889378002937 Protein export membrane protein; Region: SecD_SecF; cl14618 889378002938 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 889378002939 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 889378002940 SlyX; Region: SlyX; pfam04102 889378002941 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 889378002942 dimerization interface [polypeptide binding]; other site 889378002943 putative DNA binding site [nucleotide binding]; other site 889378002944 putative Zn2+ binding site [ion binding]; other site 889378002945 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 889378002946 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 889378002947 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 889378002948 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 889378002949 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 889378002950 intersubunit interface [polypeptide binding]; other site 889378002951 Ecdysteroid kinase; Region: EcKinase; cl17738 889378002952 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 889378002953 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 889378002954 active site 889378002955 hypothetical protein; Validated; Region: PRK00029 889378002956 Uncharacterized conserved protein [Function unknown]; Region: COG0397 889378002957 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 889378002958 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 889378002959 pyridoxal 5'-phosphate binding site [chemical binding]; other site 889378002960 homodimer interface [polypeptide binding]; other site 889378002961 catalytic residue [active] 889378002962 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 889378002963 Domain of unknown function (DUF3783); Region: DUF3783; pfam12646 889378002964 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 889378002965 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 889378002966 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 889378002967 dimerization interface [polypeptide binding]; other site 889378002968 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 889378002969 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 889378002970 Walker A/P-loop; other site 889378002971 ATP binding site [chemical binding]; other site 889378002972 Q-loop/lid; other site 889378002973 ABC transporter signature motif; other site 889378002974 Walker B; other site 889378002975 D-loop; other site 889378002976 H-loop/switch region; other site 889378002977 BioY family; Region: BioY; pfam02632 889378002978 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 889378002979 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 889378002980 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 889378002981 HAMP domain; Region: HAMP; pfam00672 889378002982 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 889378002983 Histidine kinase; Region: HisKA_2; pfam07568 889378002984 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 889378002985 ATP binding site [chemical binding]; other site 889378002986 Mg2+ binding site [ion binding]; other site 889378002987 G-X-G motif; other site 889378002988 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 889378002989 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 889378002990 dimer interface [polypeptide binding]; other site 889378002991 phosphorylation site [posttranslational modification] 889378002992 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 889378002993 ATP binding site [chemical binding]; other site 889378002994 Mg2+ binding site [ion binding]; other site 889378002995 G-X-G motif; other site 889378002996 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 889378002997 DNA-binding site [nucleotide binding]; DNA binding site 889378002998 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 889378002999 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 889378003000 Walker A/P-loop; other site 889378003001 ATP binding site [chemical binding]; other site 889378003002 Q-loop/lid; other site 889378003003 ABC transporter signature motif; other site 889378003004 Walker B; other site 889378003005 D-loop; other site 889378003006 H-loop/switch region; other site 889378003007 Alpha amylase catalytic domain found in archaeal and bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_AmyA; cd11313 889378003008 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 889378003009 active site 889378003010 catalytic site [active] 889378003011 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 889378003012 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 889378003013 metal binding site [ion binding]; metal-binding site 889378003014 active site 889378003015 I-site; other site 889378003016 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 889378003017 FecR protein; Region: FecR; pfam04773 889378003018 PQQ-like domain; Region: PQQ_2; pfam13360 889378003019 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 889378003020 Methyltransferase domain; Region: Methyltransf_31; pfam13847 889378003021 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 889378003022 S-adenosylmethionine binding site [chemical binding]; other site 889378003023 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 889378003024 active site 889378003025 homodimer interface [polypeptide binding]; other site 889378003026 catalytic site [active] 889378003027 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 889378003028 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 889378003029 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 889378003030 HlyD family secretion protein; Region: HlyD_3; pfam13437 889378003031 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 889378003032 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 889378003033 Walker A/P-loop; other site 889378003034 ATP binding site [chemical binding]; other site 889378003035 Q-loop/lid; other site 889378003036 ABC transporter signature motif; other site 889378003037 Walker B; other site 889378003038 D-loop; other site 889378003039 H-loop/switch region; other site 889378003040 Outer membrane efflux protein; Region: OEP; pfam02321 889378003041 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 889378003042 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 889378003043 Walker A/P-loop; other site 889378003044 ATP binding site [chemical binding]; other site 889378003045 Q-loop/lid; other site 889378003046 ABC transporter signature motif; other site 889378003047 Walker B; other site 889378003048 D-loop; other site 889378003049 H-loop/switch region; other site 889378003050 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 889378003051 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 889378003052 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 889378003053 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 889378003054 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 889378003055 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 889378003056 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 889378003057 Coenzyme A binding pocket [chemical binding]; other site 889378003058 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2402 889378003059 putative active site [active] 889378003060 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 889378003061 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 889378003062 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 889378003063 putative active site [active] 889378003064 putative NTP binding site [chemical binding]; other site 889378003065 putative nucleic acid binding site [nucleotide binding]; other site 889378003066 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 889378003067 Transposase, Mutator family; Region: Transposase_mut; pfam00872 889378003068 MULE transposase domain; Region: MULE; pfam10551 889378003069 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 889378003070 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 889378003071 Coenzyme A binding pocket [chemical binding]; other site 889378003072 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304 889378003073 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304 889378003074 Transposase, Mutator family; Region: Transposase_mut; pfam00872 889378003075 MULE transposase domain; Region: MULE; pfam10551 889378003076 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 889378003077 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 889378003078 putative active site [active] 889378003079 putative NTP binding site [chemical binding]; other site 889378003080 putative nucleic acid binding site [nucleotide binding]; other site 889378003081 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 889378003082 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 889378003083 putative active site [active] 889378003084 putative NTP binding site [chemical binding]; other site 889378003085 putative nucleic acid binding site [nucleotide binding]; other site 889378003086 Transposase, Mutator family; Region: Transposase_mut; pfam00872 889378003087 MULE transposase domain; Region: MULE; pfam10551 889378003088 AAA domain; Region: AAA_18; pfam13238 889378003089 YaaC-like Protein; Region: YaaC; pfam14175 889378003090 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 889378003091 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 889378003092 TAP-like protein; Region: Abhydrolase_4; pfam08386 889378003093 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 889378003094 Major Facilitator Superfamily; Region: MFS_1; pfam07690 889378003095 putative substrate translocation pore; other site 889378003096 Transcriptional regulators [Transcription]; Region: PurR; COG1609 889378003097 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 889378003098 DNA binding site [nucleotide binding] 889378003099 domain linker motif; other site 889378003100 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 889378003101 Beta-lactamase; Region: Beta-lactamase; pfam00144 889378003102 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 889378003103 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 889378003104 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 889378003105 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 889378003106 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 889378003107 Walker A/P-loop; other site 889378003108 ATP binding site [chemical binding]; other site 889378003109 Q-loop/lid; other site 889378003110 ABC transporter signature motif; other site 889378003111 Walker B; other site 889378003112 D-loop; other site 889378003113 H-loop/switch region; other site 889378003114 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 889378003115 Beta-lactamase; Region: Beta-lactamase; pfam00144 889378003116 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 889378003117 Coenzyme A binding pocket [chemical binding]; other site 889378003118 YARHG domain; Region: YARHG; pfam13308 889378003119 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 889378003120 homotrimer interaction site [polypeptide binding]; other site 889378003121 putative active site [active] 889378003122 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 889378003123 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 889378003124 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 889378003125 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 889378003126 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 889378003127 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 889378003128 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 889378003129 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 889378003130 catalytic residue [active] 889378003131 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 889378003132 active site 889378003133 trimerization site [polypeptide binding]; other site 889378003134 HEAT repeats; Region: HEAT_2; pfam13646 889378003135 HEAT repeats; Region: HEAT_2; pfam13646 889378003136 HEAT repeats; Region: HEAT_2; pfam13646 889378003137 GAF domain; Region: GAF_3; pfam13492 889378003138 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 889378003139 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 889378003140 PAS domain; Region: PAS_9; pfam13426 889378003141 putative active site [active] 889378003142 heme pocket [chemical binding]; other site 889378003143 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 889378003144 cyclase homology domain; Region: CHD; cd07302 889378003145 nucleotidyl binding site; other site 889378003146 metal binding site [ion binding]; metal-binding site 889378003147 dimer interface [polypeptide binding]; other site 889378003148 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 889378003149 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 889378003150 metal-binding site [ion binding] 889378003151 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 889378003152 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 889378003153 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 889378003154 Walker A motif; other site 889378003155 ATP binding site [chemical binding]; other site 889378003156 Walker B motif; other site 889378003157 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 889378003158 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 889378003159 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 889378003160 dimer interface [polypeptide binding]; other site 889378003161 putative CheW interface [polypeptide binding]; other site 889378003162 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 889378003163 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 889378003164 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 889378003165 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 889378003166 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 889378003167 putative acyl-acceptor binding pocket; other site 889378003168 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 889378003169 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 889378003170 Leucine-rich repeats; other site 889378003171 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 889378003172 Substrate binding site [chemical binding]; other site 889378003173 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 889378003174 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 889378003175 Lamin Tail Domain; Region: LTD; pfam00932 889378003176 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 889378003177 CotH protein; Region: CotH; pfam08757 889378003178 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 889378003179 putative metal binding residues [ion binding]; other site 889378003180 signature motif; other site 889378003181 dimer interface [polypeptide binding]; other site 889378003182 active site 889378003183 polyP binding site; other site 889378003184 substrate binding site [chemical binding]; other site 889378003185 acceptor-phosphate pocket; other site 889378003186 Divergent PAP2 family; Region: DUF212; pfam02681 889378003187 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 889378003188 Domain of unknown function (DUF1925); Region: DUF1925; pfam09094 889378003189 Domain of unknown function (DUF1926); Region: DUF1926; pfam09095 889378003190 peptide chain release factor 2; Validated; Region: prfB; PRK00578 889378003191 PCRF domain; Region: PCRF; pfam03462 889378003192 RF-1 domain; Region: RF-1; pfam00472 889378003193 Response regulator receiver domain; Region: Response_reg; pfam00072 889378003194 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 889378003195 active site 889378003196 phosphorylation site [posttranslational modification] 889378003197 intermolecular recognition site; other site 889378003198 dimerization interface [polypeptide binding]; other site 889378003199 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 889378003200 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 889378003201 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 889378003202 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 889378003203 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 889378003204 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 889378003205 Walker A/P-loop; other site 889378003206 ATP binding site [chemical binding]; other site 889378003207 Q-loop/lid; other site 889378003208 ABC transporter signature motif; other site 889378003209 Walker B; other site 889378003210 D-loop; other site 889378003211 H-loop/switch region; other site 889378003212 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 889378003213 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 889378003214 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 889378003215 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 889378003216 Phosphagen (guanidino) kinases; Region: phosphagen_kinases; cl02823 889378003217 ADP binding site [chemical binding]; other site 889378003218 phosphagen binding site; other site 889378003219 substrate specificity loop; other site 889378003220 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 889378003221 Clp amino terminal domain; Region: Clp_N; pfam02861 889378003222 Clp amino terminal domain; Region: Clp_N; pfam02861 889378003223 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 889378003224 Walker A motif; other site 889378003225 ATP binding site [chemical binding]; other site 889378003226 Walker B motif; other site 889378003227 arginine finger; other site 889378003228 UvrB/uvrC motif; Region: UVR; pfam02151 889378003229 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 889378003230 Walker A motif; other site 889378003231 ATP binding site [chemical binding]; other site 889378003232 Walker B motif; other site 889378003233 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 889378003234 Predicted dehydrogenase [General function prediction only]; Region: COG0579 889378003235 hydroxyglutarate oxidase; Provisional; Region: PRK11728 889378003236 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 889378003237 Response regulator receiver domain; Region: Response_reg; pfam00072 889378003238 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 889378003239 active site 889378003240 phosphorylation site [posttranslational modification] 889378003241 intermolecular recognition site; other site 889378003242 dimerization interface [polypeptide binding]; other site 889378003243 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 889378003244 ABC1 family; Region: ABC1; pfam03109 889378003245 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 889378003246 active site 889378003247 ATP binding site [chemical binding]; other site 889378003248 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 889378003249 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 889378003250 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 889378003251 dihydropteroate synthase; Region: DHPS; TIGR01496 889378003252 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 889378003253 substrate binding pocket [chemical binding]; other site 889378003254 dimer interface [polypeptide binding]; other site 889378003255 inhibitor binding site; inhibition site 889378003256 Uncharacterized conserved protein [Function unknown]; Region: COG1624 889378003257 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 889378003258 YbbR-like protein; Region: YbbR; pfam07949 889378003259 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 889378003260 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 889378003261 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 889378003262 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 889378003263 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 889378003264 dimerization interface 3.5A [polypeptide binding]; other site 889378003265 active site 889378003266 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 889378003267 Fe-S cluster binding site [ion binding]; other site 889378003268 active site 889378003269 primosome assembly protein PriA; Validated; Region: PRK05580 889378003270 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 889378003271 ATP binding site [chemical binding]; other site 889378003272 putative Mg++ binding site [ion binding]; other site 889378003273 helicase superfamily c-terminal domain; Region: HELICc; smart00490 889378003274 ATP-binding site [chemical binding]; other site 889378003275 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 889378003276 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 889378003277 DNA binding site [nucleotide binding] 889378003278 catalytic residue [active] 889378003279 H2TH interface [polypeptide binding]; other site 889378003280 putative catalytic residues [active] 889378003281 turnover-facilitating residue; other site 889378003282 intercalation triad [nucleotide binding]; other site 889378003283 8OG recognition residue [nucleotide binding]; other site 889378003284 putative reading head residues; other site 889378003285 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 889378003286 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 889378003287 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 889378003288 active site 889378003289 phosphorylation site [posttranslational modification] 889378003290 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 889378003291 P-loop containing region of AAA domain; Region: AAA_29; cl17516 889378003292 AAA domain; Region: AAA_23; pfam13476 889378003293 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 889378003294 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 889378003295 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 889378003296 active site 889378003297 metal binding site [ion binding]; metal-binding site 889378003298 Cache domain; Region: Cache_1; pfam02743 889378003299 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 889378003300 dimerization interface [polypeptide binding]; other site 889378003301 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 889378003302 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 889378003303 dimer interface [polypeptide binding]; other site 889378003304 putative CheW interface [polypeptide binding]; other site 889378003305 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt; cl00231 889378003306 ATP binding site [chemical binding]; other site 889378003307 active site 889378003308 substrate binding site [chemical binding]; other site 889378003309 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 889378003310 active site 889378003311 catalytic residues [active] 889378003312 metal binding site [ion binding]; metal-binding site 889378003313 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 889378003314 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 889378003315 putative active site [active] 889378003316 substrate binding site [chemical binding]; other site 889378003317 putative cosubstrate binding site; other site 889378003318 catalytic site [active] 889378003319 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 889378003320 substrate binding site [chemical binding]; other site 889378003321 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 889378003322 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 889378003323 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 889378003324 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 889378003325 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 889378003326 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 889378003327 dimer interface [polypeptide binding]; other site 889378003328 conserved gate region; other site 889378003329 ABC-ATPase subunit interface; other site 889378003330 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 889378003331 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 889378003332 Walker A/P-loop; other site 889378003333 ATP binding site [chemical binding]; other site 889378003334 Q-loop/lid; other site 889378003335 ABC transporter signature motif; other site 889378003336 Walker B; other site 889378003337 D-loop; other site 889378003338 H-loop/switch region; other site 889378003339 ABC-type proline/glycine betaine transport systems, permease component [Amino acid transport and metabolism]; Region: OpuBB; COG1174 889378003340 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 889378003341 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 889378003342 MPT binding site; other site 889378003343 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 889378003344 active site 889378003345 Zn binding site [ion binding]; other site 889378003346 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 889378003347 active site 889378003348 metal binding site [ion binding]; metal-binding site 889378003349 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 889378003350 Response regulator receiver domain; Region: Response_reg; pfam00072 889378003351 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 889378003352 active site 889378003353 phosphorylation site [posttranslational modification] 889378003354 intermolecular recognition site; other site 889378003355 dimerization interface [polypeptide binding]; other site 889378003356 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 889378003357 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 889378003358 dimer interface [polypeptide binding]; other site 889378003359 phosphorylation site [posttranslational modification] 889378003360 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 889378003361 ATP binding site [chemical binding]; other site 889378003362 Mg2+ binding site [ion binding]; other site 889378003363 G-X-G motif; other site 889378003364 Response regulator receiver domain; Region: Response_reg; pfam00072 889378003365 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 889378003366 active site 889378003367 phosphorylation site [posttranslational modification] 889378003368 intermolecular recognition site; other site 889378003369 dimerization interface [polypeptide binding]; other site 889378003370 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 889378003371 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 889378003372 metal binding site [ion binding]; metal-binding site 889378003373 active site 889378003374 I-site; other site 889378003375 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 889378003376 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 889378003377 maltodextrin glucosidase; Provisional; Region: PRK10785 889378003378 homodimer interface [polypeptide binding]; other site 889378003379 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 889378003380 active site 889378003381 homodimer interface [polypeptide binding]; other site 889378003382 catalytic site [active] 889378003383 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 889378003384 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 889378003385 active site 889378003386 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 889378003387 Isochorismatase family; Region: Isochorismatase; pfam00857 889378003388 catalytic triad [active] 889378003389 metal binding site [ion binding]; metal-binding site 889378003390 conserved cis-peptide bond; other site 889378003391 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 889378003392 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 889378003393 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 889378003394 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 889378003395 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 889378003396 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 889378003397 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 889378003398 Ligand Binding Site [chemical binding]; other site 889378003399 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 889378003400 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 889378003401 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 889378003402 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 889378003403 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 889378003404 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 889378003405 FAD binding pocket [chemical binding]; other site 889378003406 FAD binding motif [chemical binding]; other site 889378003407 phosphate binding motif [ion binding]; other site 889378003408 beta-alpha-beta structure motif; other site 889378003409 NAD binding pocket [chemical binding]; other site 889378003410 Transposase, Mutator family; Region: Transposase_mut; pfam00872 889378003411 MULE transposase domain; Region: MULE; pfam10551 889378003412 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 889378003413 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 889378003414 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 889378003415 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 889378003416 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 889378003417 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 889378003418 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 889378003419 Transposase, Mutator family; Region: Transposase_mut; pfam00872 889378003420 MULE transposase domain; Region: MULE; pfam10551 889378003421 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 889378003422 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 889378003423 Transposase, Mutator family; Region: Transposase_mut; pfam00872 889378003424 MULE transposase domain; Region: MULE; pfam10551 889378003425 oligoendopeptidase F; Region: pepF; TIGR00181 889378003426 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 889378003427 active site 889378003428 Zn binding site [ion binding]; other site 889378003429 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 889378003430 active site 889378003431 dimerization interface [polypeptide binding]; other site 889378003432 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 889378003433 DHH family; Region: DHH; pfam01368 889378003434 DHHA1 domain; Region: DHHA1; pfam02272 889378003435 ornithine carbamoyltransferase; Validated; Region: PRK02102 889378003436 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 889378003437 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 889378003438 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 889378003439 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 889378003440 Walker A motif; other site 889378003441 ATP binding site [chemical binding]; other site 889378003442 Walker B motif; other site 889378003443 arginine finger; other site 889378003444 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 889378003445 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 889378003446 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 889378003447 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 889378003448 Walker A motif; other site 889378003449 ATP binding site [chemical binding]; other site 889378003450 Walker B motif; other site 889378003451 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 889378003452 Clp protease; Region: CLP_protease; pfam00574 889378003453 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 889378003454 oligomer interface [polypeptide binding]; other site 889378003455 active site residues [active] 889378003456 trigger factor; Provisional; Region: tig; PRK01490 889378003457 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 889378003458 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 889378003459 recombination factor protein RarA/unknown domain fusion protein; Reviewed; Region: PRK13341 889378003460 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 889378003461 Walker A motif; other site 889378003462 ATP binding site [chemical binding]; other site 889378003463 Walker B motif; other site 889378003464 arginine finger; other site 889378003465 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 889378003466 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 889378003467 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 889378003468 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 889378003469 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 889378003470 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 889378003471 dimer interface [polypeptide binding]; other site 889378003472 conserved gate region; other site 889378003473 putative PBP binding loops; other site 889378003474 ABC-ATPase subunit interface; other site 889378003475 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 889378003476 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 889378003477 dimer interface [polypeptide binding]; other site 889378003478 conserved gate region; other site 889378003479 putative PBP binding loops; other site 889378003480 ABC-ATPase subunit interface; other site 889378003481 Transcriptional regulators [Transcription]; Region: PurR; COG1609 889378003482 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 889378003483 DNA binding site [nucleotide binding] 889378003484 domain linker motif; other site 889378003485 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 889378003486 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 889378003487 metal-binding site [ion binding] 889378003488 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 889378003489 catalytic core [active] 889378003490 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 889378003491 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 889378003492 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 889378003493 ABC transporter; Region: ABC_tran_2; pfam12848 889378003494 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 889378003495 photolyase PhrII; Region: phr2; TIGR00591 889378003496 DNA photolyase; Region: DNA_photolyase; pfam00875 889378003497 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 889378003498 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 889378003499 active site 889378003500 phosphorylation site [posttranslational modification] 889378003501 intermolecular recognition site; other site 889378003502 dimerization interface [polypeptide binding]; other site 889378003503 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 889378003504 Walker A motif; other site 889378003505 ATP binding site [chemical binding]; other site 889378003506 Walker B motif; other site 889378003507 arginine finger; other site 889378003508 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 889378003509 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 889378003510 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 889378003511 active site 889378003512 phosphorylation site [posttranslational modification] 889378003513 intermolecular recognition site; other site 889378003514 dimerization interface [polypeptide binding]; other site 889378003515 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 889378003516 binding surface 889378003517 TPR repeat; Region: TPR_11; pfam13414 889378003518 TPR motif; other site 889378003519 TPR repeat; Region: TPR_11; pfam13414 889378003520 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 889378003521 binding surface 889378003522 TPR motif; other site 889378003523 TPR repeat; Region: TPR_11; pfam13414 889378003524 propionate/acetate kinase; Provisional; Region: PRK12379 889378003525 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 889378003526 nucleotide binding site [chemical binding]; other site 889378003527 butyrate kinase; Provisional; Region: PRK03011 889378003528 Domain of unknown function(DUF2779); Region: DUF2779; pfam11074 889378003529 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 889378003530 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 889378003531 binding surface 889378003532 TPR motif; other site 889378003533 Tetratricopeptide repeat; Region: TPR_12; pfam13424 889378003534 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 889378003535 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 889378003536 metal binding site [ion binding]; metal-binding site 889378003537 active site 889378003538 I-site; other site 889378003539 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 889378003540 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 889378003541 putative Zn2+ binding site [ion binding]; other site 889378003542 putative DNA binding site [nucleotide binding]; other site 889378003543 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 889378003544 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 889378003545 Walker A/P-loop; other site 889378003546 ATP binding site [chemical binding]; other site 889378003547 Q-loop/lid; other site 889378003548 ABC transporter signature motif; other site 889378003549 Walker B; other site 889378003550 D-loop; other site 889378003551 H-loop/switch region; other site 889378003552 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 889378003553 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 889378003554 dimer interface [polypeptide binding]; other site 889378003555 conserved gate region; other site 889378003556 putative PBP binding loops; other site 889378003557 ABC-ATPase subunit interface; other site 889378003558 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 889378003559 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 889378003560 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 889378003561 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 889378003562 FeS/SAM binding site; other site 889378003563 HemN C-terminal domain; Region: HemN_C; pfam06969 889378003564 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK07085 889378003565 pyrophosphate-dependent phosphofructokinase; Region: PLN02251 889378003566 active site 889378003567 ADP/pyrophosphate binding site [chemical binding]; other site 889378003568 dimerization interface [polypeptide binding]; other site 889378003569 allosteric effector site; other site 889378003570 fructose-1,6-bisphosphate binding site; other site 889378003571 pullulanase, type I; Region: pulA_typeI; TIGR02104 889378003572 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 889378003573 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 889378003574 Ca binding site [ion binding]; other site 889378003575 active site 889378003576 catalytic site [active] 889378003577 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 889378003578 ferrous iron transporter FeoB; Region: feoB; TIGR00437 889378003579 G1 box; other site 889378003580 GTP/Mg2+ binding site [chemical binding]; other site 889378003581 G2 box; other site 889378003582 Switch I region; other site 889378003583 G3 box; other site 889378003584 Switch II region; other site 889378003585 G4 box; other site 889378003586 G5 box; other site 889378003587 Nucleoside recognition; Region: Gate; pfam07670 889378003588 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 889378003589 Nucleoside recognition; Region: Gate; pfam07670 889378003590 Methyltransferase domain; Region: Methyltransf_18; pfam12847 889378003591 FeoA domain; Region: FeoA; pfam04023 889378003592 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 889378003593 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 889378003594 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 889378003595 Phosphomannose isomerase type I; Region: PMI_typeI; pfam01238 889378003596 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 889378003597 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 889378003598 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 889378003599 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 889378003600 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 889378003601 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 889378003602 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 889378003603 dimer interface [polypeptide binding]; other site 889378003604 putative CheW interface [polypeptide binding]; other site 889378003605 Hemerythrin; Region: Hemerythrin; cd12107 889378003606 Fe binding site [ion binding]; other site 889378003607 TraB family; Region: TraB; pfam01963 889378003608 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 889378003609 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 889378003610 putative dimer interface [polypeptide binding]; other site 889378003611 putative anticodon binding site; other site 889378003612 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 889378003613 homodimer interface [polypeptide binding]; other site 889378003614 motif 1; other site 889378003615 motif 2; other site 889378003616 active site 889378003617 motif 3; other site 889378003618 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 889378003619 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 889378003620 ligand binding site [chemical binding]; other site 889378003621 adenosine deaminase; Provisional; Region: PRK09358 889378003622 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 889378003623 active site 889378003624 purine nucleoside phosphorylase; Provisional; Region: PRK08202 889378003625 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 889378003626 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 889378003627 Walker A/P-loop; other site 889378003628 ATP binding site [chemical binding]; other site 889378003629 Q-loop/lid; other site 889378003630 ABC transporter signature motif; other site 889378003631 Walker B; other site 889378003632 D-loop; other site 889378003633 H-loop/switch region; other site 889378003634 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 889378003635 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 889378003636 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 889378003637 TM-ABC transporter signature motif; other site 889378003638 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 889378003639 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 889378003640 TM-ABC transporter signature motif; other site 889378003641 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 889378003642 intersubunit interface [polypeptide binding]; other site 889378003643 active site 889378003644 catalytic residue [active] 889378003645 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 889378003646 active site 889378003647 catalytic motif [active] 889378003648 Zn binding site [ion binding]; other site 889378003649 Amidinotransferase; Region: Amidinotransf; cl12043 889378003650 putative bifunctional trehalose-6-phosphate synthase/HAD hydrolase subfamily IIB; Provisional; Region: PRK14501 889378003651 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 889378003652 active site 889378003653 homotetramer interface [polypeptide binding]; other site 889378003654 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 889378003655 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 889378003656 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 889378003657 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 889378003658 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 889378003659 beta-phosphoglucomutase; Region: bPGM; TIGR01990 889378003660 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 889378003661 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 889378003662 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 889378003663 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 889378003664 FMN binding site [chemical binding]; other site 889378003665 active site 889378003666 catalytic residues [active] 889378003667 substrate binding site [chemical binding]; other site 889378003668 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 889378003669 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 889378003670 anti sigma factor interaction site; other site 889378003671 regulatory phosphorylation site [posttranslational modification]; other site 889378003672 glutamine synthetase, type I; Region: GlnA; TIGR00653 889378003673 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 889378003674 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 889378003675 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 889378003676 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 889378003677 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 889378003678 tandem repeat interface [polypeptide binding]; other site 889378003679 oligomer interface [polypeptide binding]; other site 889378003680 active site residues [active] 889378003681 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 889378003682 tandem repeat interface [polypeptide binding]; other site 889378003683 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 889378003684 oligomer interface [polypeptide binding]; other site 889378003685 active site residues [active] 889378003686 Protein of unknown function (DUF3276); Region: DUF3276; pfam11680 889378003687 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 889378003688 RNA/DNA hybrid binding site [nucleotide binding]; other site 889378003689 active site 889378003690 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 889378003691 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 889378003692 Walker A/P-loop; other site 889378003693 ATP binding site [chemical binding]; other site 889378003694 Q-loop/lid; other site 889378003695 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 889378003696 Q-loop/lid; other site 889378003697 ABC transporter signature motif; other site 889378003698 Walker B; other site 889378003699 D-loop; other site 889378003700 H-loop/switch region; other site 889378003701 signal recognition particle protein; Provisional; Region: PRK10867 889378003702 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 889378003703 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 889378003704 P loop; other site 889378003705 GTP binding site [chemical binding]; other site 889378003706 Signal peptide binding domain; Region: SRP_SPB; pfam02978 889378003707 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 889378003708 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 889378003709 hypothetical protein; Provisional; Region: PRK00468 889378003710 G-X-X-G motif; other site 889378003711 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 889378003712 RimM N-terminal domain; Region: RimM; pfam01782 889378003713 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 889378003714 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 889378003715 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 889378003716 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 889378003717 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 889378003718 Zn2+ binding site [ion binding]; other site 889378003719 Mg2+ binding site [ion binding]; other site 889378003720 hypothetical protein; Reviewed; Region: PRK12497 889378003721 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 889378003722 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 889378003723 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 889378003724 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 889378003725 FeS/SAM binding site; other site 889378003726 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 889378003727 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 889378003728 FMN-binding domain; Region: FMN_bind; cl01081 889378003729 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 889378003730 Radical SAM superfamily; Region: Radical_SAM; pfam04055 889378003731 FeS/SAM binding site; other site 889378003732 PAS domain; Region: PAS_9; pfam13426 889378003733 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 889378003734 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 889378003735 DNA binding residues [nucleotide binding] 889378003736 dimerization interface [polypeptide binding]; other site 889378003737 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 889378003738 Sugar-binding cellulase-like; Region: Cellulase-like; pfam12876 889378003739 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 889378003740 metal binding triad [ion binding]; metal-binding site 889378003741 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 889378003742 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 889378003743 active site 889378003744 motif I; other site 889378003745 motif II; other site 889378003746 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 889378003747 putative transposase; Provisional; Region: PRK09857 889378003748 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 889378003749 Clostripain family; Region: Peptidase_C11; pfam03415 889378003750 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 889378003751 Peptidase family M23; Region: Peptidase_M23; pfam01551 889378003752 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 889378003753 Transposase, Mutator family; Region: Transposase_mut; pfam00872 889378003754 MULE transposase domain; Region: MULE; pfam10551 889378003755 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14337 889378003756 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 889378003757 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 889378003758 FeS/SAM binding site; other site 889378003759 TRAM domain; Region: TRAM; pfam01938 889378003760 PspC domain; Region: PspC; pfam04024 889378003761 Uncharacterized conserved protein (DUF2161); Region: DUF2161; cl02298 889378003762 Domain of unknown function (DUF389); Region: DUF389; pfam04087 889378003763 Nicotine adenine dinucleotide glycohydrolase (NADase); Region: NADase_NGA; pfam07461 889378003764 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 889378003765 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 889378003766 cyclase homology domain; Region: CHD; cd07302 889378003767 nucleotidyl binding site; other site 889378003768 metal binding site [ion binding]; metal-binding site 889378003769 dimer interface [polypeptide binding]; other site 889378003770 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 889378003771 Histidine kinase; Region: HisKA_2; pfam07568 889378003772 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 889378003773 ATP binding site [chemical binding]; other site 889378003774 Mg2+ binding site [ion binding]; other site 889378003775 G-X-G motif; other site 889378003776 ABC-2 type transporter; Region: ABC2_membrane; cl17235 889378003777 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 889378003778 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 889378003779 Walker A/P-loop; other site 889378003780 ATP binding site [chemical binding]; other site 889378003781 Q-loop/lid; other site 889378003782 ABC transporter signature motif; other site 889378003783 Walker B; other site 889378003784 D-loop; other site 889378003785 H-loop/switch region; other site 889378003786 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 889378003787 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 889378003788 DNA binding residues [nucleotide binding] 889378003789 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 889378003790 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 889378003791 DNA binding residues [nucleotide binding] 889378003792 Protein of unknown function (DUF3095); Region: DUF3095; pfam11294 889378003793 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 889378003794 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 889378003795 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 889378003796 Peptidase family M23; Region: Peptidase_M23; pfam01551 889378003797 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 889378003798 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 889378003799 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 889378003800 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 889378003801 Acylphosphatase; Region: Acylphosphatase; pfam00708 889378003802 Domain of unknown function (DUF4032); Region: DUF4032; pfam13224 889378003803 N-acetylglutamate synthase; Validated; Region: PRK05279 889378003804 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 889378003805 nucleotide binding site [chemical binding]; other site 889378003806 substrate binding site [chemical binding]; other site 889378003807 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 889378003808 Coenzyme A binding pocket [chemical binding]; other site 889378003809 Dihydroneopterin aldolase; Region: FolB; pfam02152 889378003810 active site 889378003811 TIGR03545 family protein; Region: TIGR03545 889378003812 TIGR03546 family protein; Region: TIGR03546 889378003813 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 889378003814 trimer interface [polypeptide binding]; other site 889378003815 active site 889378003816 UDP-glucose pyrophosphorylase [Carbohydrate transport and metabolism]; Region: COG4284 889378003817 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 889378003818 glucokinase, proteobacterial type; Region: glk; TIGR00749 889378003819 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 889378003820 nucleotide binding site [chemical binding]; other site 889378003821 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 889378003822 Fe-S metabolism associated domain; Region: SufE; cl00951 889378003823 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 889378003824 oligomer interface [polypeptide binding]; other site 889378003825 tandem repeat interface [polypeptide binding]; other site 889378003826 active site residues [active] 889378003827 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 889378003828 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 889378003829 tandem repeat interface [polypeptide binding]; other site 889378003830 oligomer interface [polypeptide binding]; other site 889378003831 active site residues [active] 889378003832 exonuclease I; Provisional; Region: sbcB; PRK11779 889378003833 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 889378003834 active site 889378003835 catalytic site [active] 889378003836 substrate binding site [chemical binding]; other site 889378003837 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 889378003838 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 889378003839 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 889378003840 substrate binding [chemical binding]; other site 889378003841 active site 889378003842 Domain of unknown function (DUF3524); Region: DUF3524; pfam12038 889378003843 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 889378003844 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; cd01635 889378003845 Lycopene cyclase protein; Region: Lycopene_cycl; pfam05834 889378003846 lycopene cyclase; Region: lycopene_cycl; TIGR01789 889378003847 Protein of unknown function (DUF422); Region: DUF422; cl00991 889378003848 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 889378003849 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 889378003850 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 889378003851 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 889378003852 Uncharacterized conserved protein [Function unknown]; Region: COG4121 889378003853 Domain of unknown function (DUF1820); Region: DUF1820; cl11545 889378003854 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 889378003855 active site 889378003856 catalytic site [active] 889378003857 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 889378003858 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 889378003859 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 889378003860 metal binding site [ion binding]; metal-binding site 889378003861 active site 889378003862 I-site; other site 889378003863 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 889378003864 Peptidase family M23; Region: Peptidase_M23; pfam01551 889378003865 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 889378003866 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 889378003867 S-adenosylmethionine binding site [chemical binding]; other site 889378003868 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 889378003869 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 889378003870 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 889378003871 S-adenosylmethionine binding site [chemical binding]; other site 889378003872 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 889378003873 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 889378003874 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 889378003875 putative active site [active] 889378003876 catalytic site [active] 889378003877 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 889378003878 putative active site [active] 889378003879 catalytic site [active] 889378003880 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 889378003881 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 889378003882 putative substrate translocation pore; other site 889378003883 Sulphur transport; Region: Sulf_transp; pfam04143 889378003884 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 889378003885 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 889378003886 active site residue [active] 889378003887 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 889378003888 active site residue [active] 889378003889 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; cd00291 889378003890 CPxP motif; other site 889378003891 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 889378003892 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 889378003893 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 889378003894 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK07824 889378003895 acyl-activating enzyme (AAE) consensus motif; other site 889378003896 AMP binding site [chemical binding]; other site 889378003897 active site 889378003898 CoA binding site [chemical binding]; other site 889378003899 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 889378003900 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 889378003901 Na binding site [ion binding]; other site 889378003902 FOG: CBS domain [General function prediction only]; Region: COG0517 889378003903 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 889378003904 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 889378003905 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 889378003906 Mechanosensitive ion channel; Region: MS_channel; pfam00924 889378003907 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 889378003908 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 889378003909 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 889378003910 Transposase, Mutator family; Region: Transposase_mut; pfam00872 889378003911 MULE transposase domain; Region: MULE; pfam10551 889378003912 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 889378003913 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 889378003914 ligand binding site [chemical binding]; other site 889378003915 flexible hinge region; other site 889378003916 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 889378003917 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 889378003918 active site 889378003919 catalytic tetrad [active] 889378003920 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 889378003921 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 889378003922 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 889378003923 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 889378003924 active site 889378003925 NAD binding site [chemical binding]; other site 889378003926 metal binding site [ion binding]; metal-binding site 889378003927 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 889378003928 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 889378003929 metal binding site [ion binding]; metal-binding site 889378003930 active site 889378003931 I-site; other site 889378003932 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 889378003933 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 889378003934 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation," the...; Region: Lipase_3; cd00519 889378003935 active site flap/lid [active] 889378003936 nucleophilic elbow; other site 889378003937 catalytic triad [active] 889378003938 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 889378003939 homopentamer interface [polypeptide binding]; other site 889378003940 active site 889378003941 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 889378003942 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 889378003943 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 889378003944 Lumazine binding domain; Region: Lum_binding; pfam00677 889378003945 Lumazine binding domain; Region: Lum_binding; pfam00677 889378003946 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 889378003947 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 889378003948 catalytic motif [active] 889378003949 Zn binding site [ion binding]; other site 889378003950 RibD C-terminal domain; Region: RibD_C; cl17279 889378003951 uracil transporter; Provisional; Region: PRK10720 889378003952 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 889378003953 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 889378003954 active site 889378003955 phosphorylation site [posttranslational modification] 889378003956 intermolecular recognition site; other site 889378003957 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 889378003958 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 889378003959 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 889378003960 metal binding site [ion binding]; metal-binding site 889378003961 active site 889378003962 I-site; other site 889378003963 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 889378003964 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 889378003965 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 889378003966 ATP binding site [chemical binding]; other site 889378003967 Mg2+ binding site [ion binding]; other site 889378003968 G-X-G motif; other site 889378003969 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 889378003970 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 889378003971 asparagine synthetase AsnA; Provisional; Region: PRK05425 889378003972 motif 1; other site 889378003973 dimer interface [polypeptide binding]; other site 889378003974 active site 889378003975 motif 2; other site 889378003976 motif 3; other site 889378003977 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 889378003978 Response regulator receiver domain; Region: Response_reg; pfam00072 889378003979 active site 889378003980 phosphorylation site [posttranslational modification] 889378003981 intermolecular recognition site; other site 889378003982 dimerization interface [polypeptide binding]; other site 889378003983 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 889378003984 Transposase, Mutator family; Region: Transposase_mut; pfam00872 889378003985 MULE transposase domain; Region: MULE; pfam10551 889378003986 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 889378003987 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; cl17224 889378003988 UbiA prenyltransferase family; Region: UbiA; pfam01040 889378003989 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 889378003990 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 889378003991 minor groove reading motif; other site 889378003992 helix-hairpin-helix signature motif; other site 889378003993 substrate binding pocket [chemical binding]; other site 889378003994 active site 889378003995 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 889378003996 epoxyqueuosine reductase; Region: TIGR00276 889378003997 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 889378003998 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 889378003999 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 889378004000 heterodimer interface [polypeptide binding]; other site 889378004001 active site 889378004002 FMN binding site [chemical binding]; other site 889378004003 homodimer interface [polypeptide binding]; other site 889378004004 substrate binding site [chemical binding]; other site 889378004005 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 889378004006 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 889378004007 FAD binding pocket [chemical binding]; other site 889378004008 FAD binding motif [chemical binding]; other site 889378004009 phosphate binding motif [ion binding]; other site 889378004010 beta-alpha-beta structure motif; other site 889378004011 NAD binding pocket [chemical binding]; other site 889378004012 Iron coordination center [ion binding]; other site 889378004013 Rrf2 family protein; Region: rrf2_super; TIGR00738 889378004014 Transcriptional regulator; Region: Rrf2; pfam02082 889378004015 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 889378004016 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 889378004017 catalytic residues [active] 889378004018 catalytic nucleophile [active] 889378004019 Presynaptic Site I dimer interface [polypeptide binding]; other site 889378004020 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 889378004021 Synaptic Flat tetramer interface [polypeptide binding]; other site 889378004022 Synaptic Site I dimer interface [polypeptide binding]; other site 889378004023 DNA binding site [nucleotide binding] 889378004024 Recombinase; Region: Recombinase; pfam07508 889378004025 Helix-turn-helix domain; Region: HTH_17; pfam12728 889378004026 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 889378004027 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 889378004028 Magnesium ion binding site [ion binding]; other site 889378004029 ParB-like nuclease domain; Region: ParB; smart00470 889378004030 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 889378004031 GSH binding site [chemical binding]; other site 889378004032 catalytic residues [active] 889378004033 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 889378004034 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 889378004035 non-specific DNA binding site [nucleotide binding]; other site 889378004036 salt bridge; other site 889378004037 sequence-specific DNA binding site [nucleotide binding]; other site 889378004038 Predicted helicase [General function prediction only]; Region: COG4889 889378004039 Restriction endonuclease; Region: Mrr_cat_2; pfam13156 889378004040 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 889378004041 ATP binding site [chemical binding]; other site 889378004042 putative Mg++ binding site [ion binding]; other site 889378004043 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 889378004044 nucleotide binding region [chemical binding]; other site 889378004045 ATP-binding site [chemical binding]; other site 889378004046 Uncharacterized conserved protein [Function unknown]; Region: COG1479 889378004047 Protein of unknown function DUF262; Region: DUF262; pfam03235 889378004048 Uncharacterized conserved protein [Function unknown]; Region: COG3472 889378004049 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 889378004050 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 889378004051 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 889378004052 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 889378004053 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 889378004054 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 889378004055 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 889378004056 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 889378004057 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 889378004058 active site 889378004059 DNA binding site [nucleotide binding] 889378004060 Int/Topo IB signature motif; other site 889378004061 Family description; Region: UvrD_C_2; pfam13538 889378004062 Transposase, Mutator family; Region: Transposase_mut; pfam00872 889378004063 MULE transposase domain; Region: MULE; pfam10551 889378004064 Transposase, Mutator family; Region: Transposase_mut; pfam00872 889378004065 MULE transposase domain; Region: MULE; pfam10551 889378004066 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 889378004067 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 889378004068 ATP binding site [chemical binding]; other site 889378004069 putative Mg++ binding site [ion binding]; other site 889378004070 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 889378004071 nucleotide binding region [chemical binding]; other site 889378004072 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 889378004073 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 889378004074 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 889378004075 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl17855 889378004076 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 889378004077 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 889378004078 hypothetical protein; Validated; Region: PRK00228 889378004079 Helix-turn-helix domain; Region: HTH_18; pfam12833 889378004080 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 889378004081 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 889378004082 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 889378004083 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 889378004084 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 889378004085 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 889378004086 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 889378004087 active site 889378004088 catalytic tetrad [active] 889378004089 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 889378004090 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 889378004091 DNA-binding site [nucleotide binding]; DNA binding site 889378004092 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 889378004093 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 889378004094 ligand binding site [chemical binding]; other site 889378004095 dimerization interface [polypeptide binding]; other site 889378004096 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 889378004097 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 889378004098 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 889378004099 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 889378004100 dimer interface [polypeptide binding]; other site 889378004101 ABC-ATPase subunit interface; other site 889378004102 putative PBP binding loops; other site 889378004103 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 889378004104 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 889378004105 dimer interface [polypeptide binding]; other site 889378004106 conserved gate region; other site 889378004107 putative PBP binding loops; other site 889378004108 ABC-ATPase subunit interface; other site 889378004109 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 889378004110 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 889378004111 inhibitor binding site; inhibition site 889378004112 active site 889378004113 Methyltransferase domain; Region: Methyltransf_31; pfam13847 889378004114 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 889378004115 S-adenosylmethionine binding site [chemical binding]; other site 889378004116 Nuclease-related domain; Region: NERD; pfam08378 889378004117 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 889378004118 Coenzyme A binding pocket [chemical binding]; other site 889378004119 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 889378004120 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 889378004121 Helix-turn-helix domain; Region: HTH_18; pfam12833 889378004122 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 889378004123 NAD(P) binding site [chemical binding]; other site 889378004124 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 889378004125 active site 889378004126 Transposase, Mutator family; Region: Transposase_mut; pfam00872 889378004127 MULE transposase domain; Region: MULE; pfam10551 889378004128 Transposase, Mutator family; Region: Transposase_mut; pfam00872 889378004129 MULE transposase domain; Region: MULE; pfam10551 889378004130 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 889378004131 Type-F conjugative transfer system pilin chaperone (TraQ); Region: TraQ; cl11516 889378004132 integron integrase; Region: integrase_gron; TIGR02249 889378004133 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 889378004134 Int/Topo IB signature motif; other site 889378004135 EamA-like transporter family; Region: EamA; pfam00892 889378004136 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 889378004137 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 889378004138 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12859 889378004139 NAD(P) binding site [chemical binding]; other site 889378004140 active site 889378004141 probable methionyl-tRNA synthetase; Region: PLN02610 889378004142 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 889378004143 active site 889378004144 HIGH motif; other site 889378004145 KMSKS motif; other site 889378004146 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 889378004147 tRNA binding surface [nucleotide binding]; other site 889378004148 anticodon binding site; other site 889378004149 The tRNA binding domain is also known as the Myf domain in literature. This domain is found in a diverse collection of tRNA binding proteins, including prokaryotic phenylalanyl tRNA synthetases (PheRS), methionyl-tRNA synthetases (MetRS), human...; Region: tRNA_bindingDomain; cd02153 889378004150 putative tRNA-binding site [nucleotide binding]; other site 889378004151 FemAB family; Region: FemAB; pfam02388 889378004152 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 889378004153 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 889378004154 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 889378004155 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 889378004156 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 889378004157 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 889378004158 Domain of unknown function (DUF814); Region: DUF814; pfam05670 889378004159 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 889378004160 histidinol dehydrogenase; Region: hisD; TIGR00069 889378004161 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 889378004162 NAD binding site [chemical binding]; other site 889378004163 dimerization interface [polypeptide binding]; other site 889378004164 product binding site; other site 889378004165 substrate binding site [chemical binding]; other site 889378004166 zinc binding site [ion binding]; other site 889378004167 catalytic residues [active] 889378004168 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 889378004169 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 889378004170 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 889378004171 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 889378004172 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 889378004173 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 889378004174 ribonuclease Z; Region: RNase_Z; TIGR02651 889378004175 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 889378004176 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 889378004177 Walker A/P-loop; other site 889378004178 ATP binding site [chemical binding]; other site 889378004179 Q-loop/lid; other site 889378004180 ABC transporter signature motif; other site 889378004181 Walker B; other site 889378004182 D-loop; other site 889378004183 H-loop/switch region; other site 889378004184 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 889378004185 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 889378004186 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 889378004187 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 889378004188 I-site; other site 889378004189 active site 889378004190 metal binding site [ion binding]; metal-binding site 889378004191 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 889378004192 Protein of unknown function DUF115; Region: MAF_flag10; cl17471 889378004193 Septum formation initiator; Region: DivIC; pfam04977 889378004194 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 889378004195 Peptidase family U32; Region: Peptidase_U32; pfam01136 889378004196 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 889378004197 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 889378004198 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 889378004199 Found in ATP-dependent protease La (LON); Region: LON; smart00464 889378004200 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 889378004201 Walker A motif; other site 889378004202 ATP binding site [chemical binding]; other site 889378004203 Walker B motif; other site 889378004204 arginine finger; other site 889378004205 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 889378004206 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 889378004207 Recombination protein O N terminal; Region: RecO_N; pfam11967 889378004208 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 889378004209 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 889378004210 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 889378004211 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 889378004212 DHH family; Region: DHH; pfam01368 889378004213 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 889378004214 DHHA1 domain; Region: DHHA1; pfam02272 889378004215 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 889378004216 Peptidase family M23; Region: Peptidase_M23; pfam01551 889378004217 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 889378004218 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 889378004219 active site 889378004220 metal binding site [ion binding]; metal-binding site 889378004221 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 889378004222 active site 889378004223 metal binding site [ion binding]; metal-binding site 889378004224 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 889378004225 binding surface 889378004226 TPR motif; other site 889378004227 TPR repeat; Region: TPR_11; pfam13414 889378004228 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 889378004229 binding surface 889378004230 TPR motif; other site 889378004231 Tetratricopeptide repeat; Region: TPR_12; pfam13424 889378004232 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 889378004233 binding surface 889378004234 TPR motif; other site 889378004235 TPR repeat; Region: TPR_11; pfam13414 889378004236 Restriction endonuclease; Region: Mrr_cat; pfam04471 889378004237 Tetratricopeptide repeat; Region: TPR_12; pfam13424 889378004238 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 889378004239 binding surface 889378004240 TPR motif; other site 889378004241 TPR repeat; Region: TPR_11; pfam13414 889378004242 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 889378004243 TPR motif; other site 889378004244 binding surface 889378004245 TPR repeat; Region: TPR_11; pfam13414 889378004246 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 889378004247 binding surface 889378004248 TPR motif; other site 889378004249 TPR repeat; Region: TPR_11; pfam13414 889378004250 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 889378004251 binding surface 889378004252 TPR repeat; Region: TPR_11; pfam13414 889378004253 TPR motif; other site 889378004254 TPR repeat; Region: TPR_11; pfam13414 889378004255 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 889378004256 binding surface 889378004257 TPR motif; other site 889378004258 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 889378004259 binding surface 889378004260 TPR motif; other site 889378004261 TPR repeat; Region: TPR_11; pfam13414 889378004262 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 889378004263 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 889378004264 ATP binding site [chemical binding]; other site 889378004265 Mg2+ binding site [ion binding]; other site 889378004266 G-X-G motif; other site 889378004267 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 889378004268 ATP binding site [chemical binding]; other site 889378004269 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 889378004270 FecR protein; Region: FecR; pfam04773 889378004271 Protein of unknown function (DUF503); Region: DUF503; cl00669 889378004272 Late competence development protein ComFB; Region: ComFB; pfam10719 889378004273 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 889378004274 PLD-like domain; Region: PLDc_2; pfam13091 889378004275 putative active site [active] 889378004276 catalytic site [active] 889378004277 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 889378004278 PLD-like domain; Region: PLDc_2; pfam13091 889378004279 putative active site [active] 889378004280 catalytic site [active] 889378004281 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 889378004282 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 889378004283 catalytic triad [active] 889378004284 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 889378004285 Caspase domain; Region: Peptidase_C14; pfam00656 889378004286 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 889378004287 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 889378004288 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 889378004289 putative active site [active] 889378004290 nucleotide binding site [chemical binding]; other site 889378004291 nudix motif; other site 889378004292 putative metal binding site [ion binding]; other site 889378004293 Bacterial transcriptional repressor; Region: TetR; pfam13972 889378004294 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 889378004295 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 889378004296 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 889378004297 ATP binding site [chemical binding]; other site 889378004298 putative Mg++ binding site [ion binding]; other site 889378004299 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 889378004300 nucleotide binding region [chemical binding]; other site 889378004301 ATP-binding site [chemical binding]; other site 889378004302 TRCF domain; Region: TRCF; pfam03461 889378004303 GAF domain; Region: GAF_2; pfam13185 889378004304 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 889378004305 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 889378004306 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 889378004307 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 889378004308 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 889378004309 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 889378004310 S-adenosylmethionine binding site [chemical binding]; other site 889378004311 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 889378004312 elongation factor G; Reviewed; Region: PRK12740 889378004313 G1 box; other site 889378004314 putative GEF interaction site [polypeptide binding]; other site 889378004315 GTP/Mg2+ binding site [chemical binding]; other site 889378004316 Switch I region; other site 889378004317 G2 box; other site 889378004318 G3 box; other site 889378004319 Switch II region; other site 889378004320 G4 box; other site 889378004321 G5 box; other site 889378004322 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 889378004323 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 889378004324 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 889378004325 elongation factor G; Reviewed; Region: PRK12739 889378004326 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 889378004327 G1 box; other site 889378004328 putative GEF interaction site [polypeptide binding]; other site 889378004329 GTP/Mg2+ binding site [chemical binding]; other site 889378004330 Switch I region; other site 889378004331 G2 box; other site 889378004332 G3 box; other site 889378004333 Switch II region; other site 889378004334 G4 box; other site 889378004335 G5 box; other site 889378004336 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 889378004337 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cd01680 889378004338 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 889378004339 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 889378004340 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 889378004341 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 889378004342 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 889378004343 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 889378004344 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 889378004345 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 889378004346 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 889378004347 active site 889378004348 metal binding site [ion binding]; metal-binding site 889378004349 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 889378004350 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 889378004351 active site 889378004352 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 889378004353 active site 2 [active] 889378004354 active site 1 [active] 889378004355 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 889378004356 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 889378004357 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 889378004358 nucleotide binding site [chemical binding]; other site 889378004359 Esterase/lipase [General function prediction only]; Region: COG1647 889378004360 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 889378004361 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 889378004362 active site 889378004363 NTP binding site [chemical binding]; other site 889378004364 metal binding triad [ion binding]; metal-binding site 889378004365 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 889378004366 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 889378004367 flagellin; Provisional; Region: PRK12804 889378004368 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 889378004369 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 889378004370 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 889378004371 Thiamine pyrophosphokinase; Region: TPK; cd07995 889378004372 active site 889378004373 dimerization interface [polypeptide binding]; other site 889378004374 thiamine binding site [chemical binding]; other site 889378004375 Fusaric acid resistance protein family; Region: FUSC; pfam04632 889378004376 Chorismate mutase (AroH) is one of at least five chorismate-utilizing enzymes present in microorganisms that catalyze the rearrangement of chorismate to prephenic acid, the first committed step in the biosynthesis of aromatic amino acids. In prokaryotes; Region: AroH; cl10037 889378004377 homotrimer interaction site [polypeptide binding]; other site 889378004378 active site 889378004379 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 889378004380 active site 889378004381 Flagellin N-methylase; Region: FliB; cl00497 889378004382 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 889378004383 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 889378004384 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 889378004385 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 889378004386 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 889378004387 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 889378004388 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 889378004389 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 889378004390 ligand binding site [chemical binding]; other site 889378004391 DNA primase; Validated; Region: dnaG; PRK05667 889378004392 CHC2 zinc finger; Region: zf-CHC2; pfam01807 889378004393 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 889378004394 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 889378004395 active site 889378004396 metal binding site [ion binding]; metal-binding site 889378004397 interdomain interaction site; other site 889378004398 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 889378004399 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 889378004400 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 889378004401 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 889378004402 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 889378004403 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 889378004404 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 889378004405 DNA binding residues [nucleotide binding] 889378004406 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 889378004407 Putative zinc ribbon domain; Region: DUF164; pfam02591 889378004408 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 889378004409 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 889378004410 TPR motif; other site 889378004411 binding surface 889378004412 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 889378004413 binding surface 889378004414 TPR motif; other site 889378004415 rod shape-determining protein MreB; Provisional; Region: PRK13927 889378004416 MreB and similar proteins; Region: MreB_like; cd10225 889378004417 nucleotide binding site [chemical binding]; other site 889378004418 Mg binding site [ion binding]; other site 889378004419 putative protofilament interaction site [polypeptide binding]; other site 889378004420 RodZ interaction site [polypeptide binding]; other site 889378004421 rod shape-determining protein MreC; Provisional; Region: PRK13922 889378004422 rod shape-determining protein MreC; Region: MreC; pfam04085 889378004423 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 889378004424 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 889378004425 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 889378004426 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 889378004427 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 889378004428 Transposase, Mutator family; Region: Transposase_mut; pfam00872 889378004429 MULE transposase domain; Region: MULE; pfam10551 889378004430 CHASE2 domain; Region: CHASE2; pfam05226 889378004431 CHASE2 domain; Region: CHASE2; pfam05226 889378004432 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 889378004433 cyclase homology domain; Region: CHD; cd07302 889378004434 nucleotidyl binding site; other site 889378004435 metal binding site [ion binding]; metal-binding site 889378004436 dimer interface [polypeptide binding]; other site 889378004437 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 889378004438 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 889378004439 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 889378004440 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 889378004441 Walker A motif; other site 889378004442 ATP binding site [chemical binding]; other site 889378004443 Walker B motif; other site 889378004444 arginine finger; other site 889378004445 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 889378004446 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 889378004447 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 889378004448 RNA binding site [nucleotide binding]; other site 889378004449 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 889378004450 RNA binding site [nucleotide binding]; other site 889378004451 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 889378004452 RNA binding site [nucleotide binding]; other site 889378004453 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 889378004454 RNA binding site [nucleotide binding]; other site 889378004455 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 889378004456 RNA binding site [nucleotide binding]; other site 889378004457 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 889378004458 RNA binding site [nucleotide binding]; other site 889378004459 Cytidylate kinase [Nucleotide transport and metabolism]; Region: Cmk; COG0283 889378004460 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 889378004461 CMP-binding site; other site 889378004462 The sites determining sugar specificity; other site 889378004463 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 889378004464 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 889378004465 RNA binding surface [nucleotide binding]; other site 889378004466 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 889378004467 active site 889378004468 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 889378004469 ScpA/B protein; Region: ScpA_ScpB; cl00598 889378004470 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 889378004471 catalytic center binding site [active] 889378004472 ATP binding site [chemical binding]; other site 889378004473 recombinase A; Provisional; Region: recA; PRK09354 889378004474 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 889378004475 hexamer interface [polypeptide binding]; other site 889378004476 Walker A motif; other site 889378004477 ATP binding site [chemical binding]; other site 889378004478 Walker B motif; other site 889378004479 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 889378004480 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 889378004481 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 889378004482 active site 889378004483 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 889378004484 putative active site [active] 889378004485 dimerization interface [polypeptide binding]; other site 889378004486 putative tRNAtyr binding site [nucleotide binding]; other site 889378004487 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 889378004488 TPR repeat; Region: TPR_11; pfam13414 889378004489 binding surface 889378004490 TPR motif; other site 889378004491 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 889378004492 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 889378004493 TPR motif; other site 889378004494 binding surface 889378004495 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 889378004496 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 889378004497 substrate binding site [chemical binding]; other site 889378004498 hexamer interface [polypeptide binding]; other site 889378004499 metal binding site [ion binding]; metal-binding site 889378004500 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 889378004501 binding surface 889378004502 TPR motif; other site 889378004503 transcript cleavage factor/unknown domain fusion protein; Provisional; Region: PRK14720 889378004504 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 889378004505 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 889378004506 HEAT repeats; Region: HEAT_2; pfam13646 889378004507 HEAT repeats; Region: HEAT_2; pfam13646 889378004508 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 889378004509 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 889378004510 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 889378004511 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 889378004512 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 889378004513 Predicted permeases [General function prediction only]; Region: COG0795 889378004514 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 889378004515 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 889378004516 Predicted permeases [General function prediction only]; Region: COG0795 889378004517 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 889378004518 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 889378004519 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 889378004520 trimer interface [polypeptide binding]; other site 889378004521 active site 889378004522 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 889378004523 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 889378004524 RNase E interface [polypeptide binding]; other site 889378004525 trimer interface [polypeptide binding]; other site 889378004526 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 889378004527 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 889378004528 RNase E interface [polypeptide binding]; other site 889378004529 trimer interface [polypeptide binding]; other site 889378004530 active site 889378004531 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 889378004532 putative nucleic acid binding region [nucleotide binding]; other site 889378004533 G-X-X-G motif; other site 889378004534 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 889378004535 RNA binding site [nucleotide binding]; other site 889378004536 domain interface; other site 889378004537 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 889378004538 16S/18S rRNA binding site [nucleotide binding]; other site 889378004539 S13e-L30e interaction site [polypeptide binding]; other site 889378004540 25S rRNA binding site [nucleotide binding]; other site 889378004541 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 889378004542 active site 889378004543 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 889378004544 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 889378004545 RNA binding site [nucleotide binding]; other site 889378004546 active site 889378004547 Ribosome-binding factor A; Region: RBFA; pfam02033 889378004548 translation initiation factor IF-2; Region: IF-2; TIGR00487 889378004549 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 889378004550 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 889378004551 G1 box; other site 889378004552 putative GEF interaction site [polypeptide binding]; other site 889378004553 GTP/Mg2+ binding site [chemical binding]; other site 889378004554 Switch I region; other site 889378004555 G2 box; other site 889378004556 G3 box; other site 889378004557 Switch II region; other site 889378004558 G4 box; other site 889378004559 G5 box; other site 889378004560 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 889378004561 Translation-initiation factor 2; Region: IF-2; pfam11987 889378004562 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 889378004563 transcription termination factor NusA; Region: NusA; TIGR01953 889378004564 NusA N-terminal domain; Region: NusA_N; pfam08529 889378004565 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 889378004566 RNA binding site [nucleotide binding]; other site 889378004567 homodimer interface [polypeptide binding]; other site 889378004568 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 889378004569 G-X-X-G motif; other site 889378004570 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 889378004571 G-X-X-G motif; other site 889378004572 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 889378004573 Sm and related proteins; Region: Sm_like; cl00259 889378004574 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 889378004575 putative oligomer interface [polypeptide binding]; other site 889378004576 putative RNA binding site [nucleotide binding]; other site 889378004577 comF family protein; Region: comF; TIGR00201 889378004578 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 889378004579 active site 889378004580 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 889378004581 MutS domain I; Region: MutS_I; pfam01624 889378004582 MutS domain II; Region: MutS_II; pfam05188 889378004583 MutS domain III; Region: MutS_III; pfam05192 889378004584 MutS domain V; Region: MutS_V; pfam00488 889378004585 Walker A/P-loop; other site 889378004586 ATP binding site [chemical binding]; other site 889378004587 Q-loop/lid; other site 889378004588 ABC transporter signature motif; other site 889378004589 Walker B; other site 889378004590 D-loop; other site 889378004591 H-loop/switch region; other site 889378004592 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 889378004593 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 889378004594 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 889378004595 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 889378004596 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 889378004597 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 889378004598 Surface antigen; Region: Bac_surface_Ag; pfam01103 889378004599 Surface antigen; Region: Bac_surface_Ag; pfam01103 889378004600 Family of unknown function (DUF490); Region: DUF490; pfam04357 889378004601 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 889378004602 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 889378004603 TMP-binding site; other site 889378004604 ATP-binding site [chemical binding]; other site 889378004605 Stage V sporulation protein AD (SpoVAD); Region: SpoVAD; pfam07451 889378004606 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 889378004607 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 889378004608 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 889378004609 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 889378004610 Walker A motif; other site 889378004611 ATP binding site [chemical binding]; other site 889378004612 Walker B motif; other site 889378004613 arginine finger; other site 889378004614 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 889378004615 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 889378004616 RuvA N terminal domain; Region: RuvA_N; pfam01330 889378004617 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 889378004618 active site 889378004619 putative DNA-binding cleft [nucleotide binding]; other site 889378004620 dimer interface [polypeptide binding]; other site 889378004621 hypothetical protein; Validated; Region: PRK00110 889378004622 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 889378004623 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 889378004624 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 889378004625 Catalytic site [active] 889378004626 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 889378004627 PEGA domain; Region: PEGA; pfam08308 889378004628 Uncharacterized conserved protein [Function unknown]; Region: COG1262 889378004629 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 889378004630 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 889378004631 SmpB-tmRNA interface; other site 889378004632 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 889378004633 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 889378004634 active site 889378004635 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 889378004636 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 889378004637 active site 889378004638 DNA binding site [nucleotide binding] 889378004639 Int/Topo IB signature motif; other site 889378004640 Phage-related protein [Function unknown]; Region: COG5412 889378004641 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 889378004642 Phage capsid family; Region: Phage_capsid; pfam05065 889378004643 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 889378004644 Phage-related protein [Function unknown]; Region: COG4695; cl01923 889378004645 Phage portal protein; Region: Phage_portal; pfam04860 889378004646 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 889378004647 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 889378004648 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 889378004649 dimer interface [polypeptide binding]; other site 889378004650 ssDNA binding site [nucleotide binding]; other site 889378004651 tetramer (dimer of dimers) interface [polypeptide binding]; other site 889378004652 Helix-turn-helix domain; Region: HTH_17; pfam12728 889378004653 Domain of unknown function (DUF4406); Region: DUF4406; pfam14359 889378004654 2',3'-cyclic-nucleotide 2'-phosphodiesterase; Region: CycNucDiestase; TIGR01390 889378004655 Prophage antirepressor [Transcription]; Region: COG3617 889378004656 BRO family, N-terminal domain; Region: Bro-N; smart01040 889378004657 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 889378004658 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 889378004659 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 889378004660 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 889378004661 G1 box; other site 889378004662 putative GEF interaction site [polypeptide binding]; other site 889378004663 GTP/Mg2+ binding site [chemical binding]; other site 889378004664 Switch I region; other site 889378004665 G2 box; other site 889378004666 G3 box; other site 889378004667 Switch II region; other site 889378004668 G4 box; other site 889378004669 G5 box; other site 889378004670 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 889378004671 Predicted permease [General function prediction only]; Region: COG2056 889378004672 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 889378004673 L-lactate permease; Region: Lactate_perm; cl00701 889378004674 Protein of unknown function, DUF479; Region: DUF479; cl01203 889378004675 GMP synthase; Reviewed; Region: guaA; PRK00074 889378004676 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 889378004677 AMP/PPi binding site [chemical binding]; other site 889378004678 candidate oxyanion hole; other site 889378004679 catalytic triad [active] 889378004680 potential glutamine specificity residues [chemical binding]; other site 889378004681 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 889378004682 ATP Binding subdomain [chemical binding]; other site 889378004683 Ligand Binding sites [chemical binding]; other site 889378004684 Dimerization subdomain; other site 889378004685 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 889378004686 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 889378004687 GDP-binding site [chemical binding]; other site 889378004688 ACT binding site; other site 889378004689 IMP binding site; other site 889378004690 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 889378004691 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 889378004692 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 889378004693 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 889378004694 active site 889378004695 adenylosuccinate lyase; Provisional; Region: PRK09285 889378004696 Adenylsuccinate lyase (ASL)_like; Region: Adenylsuccinate_lyase_like; cd01595 889378004697 active site 889378004698 tetramer interface [polypeptide binding]; other site 889378004699 Adenylosuccinate lyase C-terminus; Region: ADSL_C; cl17237 889378004700 Sporulation related domain; Region: SPOR; cl10051 889378004701 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 889378004702 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 889378004703 purine monophosphate binding site [chemical binding]; other site 889378004704 dimer interface [polypeptide binding]; other site 889378004705 putative catalytic residues [active] 889378004706 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 889378004707 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 889378004708 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 889378004709 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 889378004710 homodimer interface [polypeptide binding]; other site 889378004711 NADP binding site [chemical binding]; other site 889378004712 substrate binding site [chemical binding]; other site 889378004713 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 889378004714 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 889378004715 active site 889378004716 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 889378004717 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 889378004718 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 889378004719 protein binding site [polypeptide binding]; other site 889378004720 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 889378004721 protein binding site [polypeptide binding]; other site 889378004722 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 889378004723 active site 889378004724 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 889378004725 putative RNA binding site [nucleotide binding]; other site 889378004726 SurA N-terminal domain; Region: SurA_N; pfam09312 889378004727 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 889378004728 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 889378004729 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 889378004730 HSP70 interaction site [polypeptide binding]; other site 889378004731 Tetratricopeptide repeat; Region: TPR_12; pfam13424 889378004732 Preprotein translocase SecG subunit; Region: SecG; pfam03840 889378004733 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 889378004734 triosephosphate isomerase; Provisional; Region: PRK14565 889378004735 substrate binding site [chemical binding]; other site 889378004736 dimer interface [polypeptide binding]; other site 889378004737 catalytic triad [active] 889378004738 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 889378004739 Phosphoglycerate kinase; Region: PGK; pfam00162 889378004740 substrate binding site [chemical binding]; other site 889378004741 hinge regions; other site 889378004742 ADP binding site [chemical binding]; other site 889378004743 catalytic site [active] 889378004744 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 889378004745 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 889378004746 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 889378004747 Tetratricopeptide repeat; Region: TPR_16; pfam13432 889378004748 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 889378004749 binding surface 889378004750 TPR motif; other site 889378004751 Tetratricopeptide repeat; Region: TPR_16; pfam13432 889378004752 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 889378004753 TPR motif; other site 889378004754 binding surface 889378004755 Tetratricopeptide repeat; Region: TPR_16; pfam13432 889378004756 FOG: CBS domain [General function prediction only]; Region: COG0517 889378004757 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 889378004758 Transporter associated domain; Region: CorC_HlyC; smart01091 889378004759 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 889378004760 PhoH-like protein; Region: PhoH; pfam02562 889378004761 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 889378004762 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 889378004763 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 889378004764 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 889378004765 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 889378004766 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 889378004767 binding surface 889378004768 TPR repeat; Region: TPR_11; pfam13414 889378004769 TPR motif; other site 889378004770 V-type ATP synthase subunit K; Validated; Region: PRK06649 889378004771 V-type ATP synthase subunit I; Validated; Region: PRK05771 889378004772 V-type ATP synthase subunit D; Provisional; Region: PRK02195 889378004773 V-type ATP synthase subunit B; Provisional; Region: PRK02118 889378004774 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 889378004775 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 889378004776 Walker A motif homologous position; other site 889378004777 Walker B motif; other site 889378004778 V-type ATP synthase subunit A; Provisional; Region: PRK04192 889378004779 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 889378004780 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 889378004781 Walker A motif/ATP binding site; other site 889378004782 Walker B motif; other site 889378004783 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 889378004784 V-type ATP synthase subunit E; Provisional; Region: PRK01558 889378004785 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: COG1193 889378004786 MutS domain III; Region: MutS_III; pfam05192 889378004787 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 889378004788 Walker A/P-loop; other site 889378004789 ATP binding site [chemical binding]; other site 889378004790 Q-loop/lid; other site 889378004791 ABC transporter signature motif; other site 889378004792 Walker B; other site 889378004793 D-loop; other site 889378004794 H-loop/switch region; other site 889378004795 Smr domain; Region: Smr; pfam01713 889378004796 GTPase RsgA; Reviewed; Region: PRK00098 889378004797 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 889378004798 RNA binding site [nucleotide binding]; other site 889378004799 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 889378004800 GTPase/Zn-binding domain interface [polypeptide binding]; other site 889378004801 GTP/Mg2+ binding site [chemical binding]; other site 889378004802 G4 box; other site 889378004803 G5 box; other site 889378004804 G1 box; other site 889378004805 Switch I region; other site 889378004806 G2 box; other site 889378004807 G3 box; other site 889378004808 Switch II region; other site 889378004809 glutamate racemase; Provisional; Region: PRK00865 889378004810 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 889378004811 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 889378004812 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 889378004813 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 889378004814 RNA binding surface [nucleotide binding]; other site 889378004815 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 889378004816 active site 889378004817 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 889378004818 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 889378004819 active site 889378004820 multimer interface [polypeptide binding]; other site 889378004821 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 889378004822 predicted active site [active] 889378004823 catalytic triad [active] 889378004824 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 889378004825 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 889378004826 substrate binding pocket [chemical binding]; other site 889378004827 chain length determination region; other site 889378004828 substrate-Mg2+ binding site; other site 889378004829 catalytic residues [active] 889378004830 aspartate-rich region 1; other site 889378004831 active site lid residues [active] 889378004832 aspartate-rich region 2; other site 889378004833 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 889378004834 active site lid residues [active] 889378004835 substrate binding pocket [chemical binding]; other site 889378004836 catalytic residues [active] 889378004837 substrate-Mg2+ binding site; other site 889378004838 aspartate-rich region 1; other site 889378004839 aspartate-rich region 2; other site 889378004840 phytoene desaturase; Region: crtI_fam; TIGR02734 889378004841 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 889378004842 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 889378004843 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 889378004844 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 889378004845 PYR/PP interface [polypeptide binding]; other site 889378004846 dimer interface [polypeptide binding]; other site 889378004847 TPP binding site [chemical binding]; other site 889378004848 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 889378004849 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 889378004850 TPP-binding site [chemical binding]; other site 889378004851 dimer interface [polypeptide binding]; other site 889378004852 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 889378004853 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 889378004854 putative valine binding site [chemical binding]; other site 889378004855 dimer interface [polypeptide binding]; other site 889378004856 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 889378004857 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 889378004858 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 889378004859 Radical SAM superfamily; Region: Radical_SAM; pfam04055 889378004860 FeS/SAM binding site; other site 889378004861 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 889378004862 Response regulator receiver domain; Region: Response_reg; pfam00072 889378004863 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 889378004864 active site 889378004865 phosphorylation site [posttranslational modification] 889378004866 intermolecular recognition site; other site 889378004867 dimerization interface [polypeptide binding]; other site 889378004868 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 889378004869 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 889378004870 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 889378004871 putative CheA interaction surface; other site 889378004872 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 889378004873 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 889378004874 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 889378004875 putative binding surface; other site 889378004876 active site 889378004877 P2 response regulator binding domain; Region: P2; pfam07194 889378004878 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 889378004879 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 889378004880 ATP binding site [chemical binding]; other site 889378004881 Mg2+ binding site [ion binding]; other site 889378004882 G-X-G motif; other site 889378004883 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 889378004884 Flagellar filament outer layer protein Flaa; Region: FlaA; pfam04620 889378004885 Sporulation and spore germination; Region: Germane; cl11253 889378004886 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 889378004887 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 889378004888 active site 889378004889 metal binding site [ion binding]; metal-binding site 889378004890 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 889378004891 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 889378004892 Methyltransferase domain; Region: Methyltransf_23; pfam13489 889378004893 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 889378004894 S-adenosylmethionine binding site [chemical binding]; other site 889378004895 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 889378004896 active site 889378004897 spiro-SPASM protein; Region: spiroSPASM; TIGR04321 889378004898 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 889378004899 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 889378004900 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 889378004901 generic binding surface II; other site 889378004902 generic binding surface I; other site 889378004903 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 889378004904 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 889378004905 PEGA domain; Region: PEGA; pfam08308 889378004906 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 889378004907 Double zinc ribbon; Region: DZR; pfam12773 889378004908 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 889378004909 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 889378004910 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 889378004911 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 889378004912 Uncharacterized protein family (UPF0164); Region: UPF0164; pfam03687 889378004913 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 889378004914 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 889378004915 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 889378004916 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 889378004917 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 889378004918 active site 889378004919 PHP Thumb interface [polypeptide binding]; other site 889378004920 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 889378004921 generic binding surface II; other site 889378004922 generic binding surface I; other site 889378004923 ribonuclease III; Reviewed; Region: rnc; PRK00102 889378004924 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 889378004925 dimerization interface [polypeptide binding]; other site 889378004926 active site 889378004927 metal binding site [ion binding]; metal-binding site 889378004928 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 889378004929 dsRNA binding site [nucleotide binding]; other site 889378004930 acyl carrier protein; Provisional; Region: acpP; PRK00982 889378004931 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 889378004932 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 889378004933 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 889378004934 active site 889378004935 (T/H)XGH motif; other site 889378004936 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 889378004937 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 889378004938 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 889378004939 [2Fe-2S] cluster binding site [ion binding]; other site 889378004940 FeS assembly protein SufD; Region: sufD; TIGR01981 889378004941 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 889378004942 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 889378004943 FeS assembly protein SufB; Region: sufB; TIGR01980 889378004944 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 889378004945 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 889378004946 Walker A/P-loop; other site 889378004947 ATP binding site [chemical binding]; other site 889378004948 Q-loop/lid; other site 889378004949 ABC transporter signature motif; other site 889378004950 Walker B; other site 889378004951 D-loop; other site 889378004952 H-loop/switch region; other site 889378004953 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 889378004954 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 889378004955 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 889378004956 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 889378004957 putative active site [active] 889378004958 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 889378004959 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 889378004960 active site 889378004961 phosphorylation site [posttranslational modification] 889378004962 intermolecular recognition site; other site 889378004963 dimerization interface [polypeptide binding]; other site 889378004964 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 889378004965 Walker A motif; other site 889378004966 ATP binding site [chemical binding]; other site 889378004967 Walker B motif; other site 889378004968 arginine finger; other site 889378004969 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 889378004970 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 889378004971 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 889378004972 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; cl02459 889378004973 putative active site [active] 889378004974 heme pocket [chemical binding]; other site 889378004975 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 889378004976 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 889378004977 putative active site [active] 889378004978 heme pocket [chemical binding]; other site 889378004979 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 889378004980 putative active site [active] 889378004981 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 889378004982 heme pocket [chemical binding]; other site 889378004983 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 889378004984 dimer interface [polypeptide binding]; other site 889378004985 phosphorylation site [posttranslational modification] 889378004986 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 889378004987 ATP binding site [chemical binding]; other site 889378004988 Mg2+ binding site [ion binding]; other site 889378004989 G-X-G motif; other site 889378004990 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 889378004991 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 889378004992 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 889378004993 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 889378004994 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 889378004995 acyl-activating enzyme (AAE) consensus motif; other site 889378004996 putative AMP binding site [chemical binding]; other site 889378004997 putative active site [active] 889378004998 putative CoA binding site [chemical binding]; other site 889378004999 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 889378005000 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 889378005001 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 889378005002 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 889378005003 dimer interface [polypeptide binding]; other site 889378005004 phosphorylation site [posttranslational modification] 889378005005 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 889378005006 ATP binding site [chemical binding]; other site 889378005007 Mg2+ binding site [ion binding]; other site 889378005008 G-X-G motif; other site 889378005009 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 889378005010 HflK protein; Region: hflK; TIGR01933 889378005011 HflC protein; Region: hflC; TIGR01932 889378005012 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 889378005013 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 889378005014 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 889378005015 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 889378005016 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 889378005017 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 889378005018 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 889378005019 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 889378005020 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 889378005021 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 889378005022 DNA polymerase IV; Provisional; Region: PRK14133 889378005023 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 889378005024 active site 889378005025 DNA binding site [nucleotide binding] 889378005026 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 889378005027 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 889378005028 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 889378005029 RNA binding surface [nucleotide binding]; other site 889378005030 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 889378005031 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 889378005032 ATP binding site [chemical binding]; other site 889378005033 Mg++ binding site [ion binding]; other site 889378005034 motif III; other site 889378005035 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 889378005036 nucleotide binding region [chemical binding]; other site 889378005037 ATP-binding site [chemical binding]; other site 889378005038 Membrane transport protein; Region: Mem_trans; cl09117 889378005039 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 889378005040 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 889378005041 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 889378005042 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 889378005043 pyridoxal 5'-phosphate binding site [chemical binding]; other site 889378005044 homodimer interface [polypeptide binding]; other site 889378005045 catalytic residue [active] 889378005046 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 889378005047 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 889378005048 ligand binding site [chemical binding]; other site 889378005049 flexible hinge region; other site 889378005050 Ion channel; Region: Ion_trans_2; pfam07885 889378005051 TrkA-N domain; Region: TrkA_N; pfam02254 889378005052 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 889378005053 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 889378005054 putative active site [active] 889378005055 heme pocket [chemical binding]; other site 889378005056 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 889378005057 dimer interface [polypeptide binding]; other site 889378005058 phosphorylation site [posttranslational modification] 889378005059 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 889378005060 ATP binding site [chemical binding]; other site 889378005061 Mg2+ binding site [ion binding]; other site 889378005062 G-X-G motif; other site 889378005063 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 889378005064 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 889378005065 active site 889378005066 phosphorylation site [posttranslational modification] 889378005067 intermolecular recognition site; other site 889378005068 dimerization interface [polypeptide binding]; other site 889378005069 Response regulator receiver domain; Region: Response_reg; pfam00072 889378005070 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 889378005071 active site 889378005072 phosphorylation site [posttranslational modification] 889378005073 intermolecular recognition site; other site 889378005074 dimerization interface [polypeptide binding]; other site 889378005075 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; cl00086 889378005076 Response regulator receiver domain; Region: Response_reg; pfam00072 889378005077 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 889378005078 active site 889378005079 phosphorylation site [posttranslational modification] 889378005080 intermolecular recognition site; other site 889378005081 dimerization interface [polypeptide binding]; other site 889378005082 Response regulator receiver domain; Region: Response_reg; pfam00072 889378005083 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 889378005084 active site 889378005085 phosphorylation site [posttranslational modification] 889378005086 intermolecular recognition site; other site 889378005087 dimerization interface [polypeptide binding]; other site 889378005088 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 889378005089 Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain I; Region: PGM_PMM_I; pfam02878 889378005090 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 889378005091 metal binding site [ion binding]; metal-binding site 889378005092 substrate binding site [chemical binding]; other site 889378005093 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 889378005094 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 889378005095 active site 889378005096 HIGH motif; other site 889378005097 nucleotide binding site [chemical binding]; other site 889378005098 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 889378005099 KMSKS motif; other site 889378005100 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 889378005101 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 889378005102 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 889378005103 endonuclease III; Region: ENDO3c; smart00478 889378005104 minor groove reading motif; other site 889378005105 helix-hairpin-helix signature motif; other site 889378005106 substrate binding pocket [chemical binding]; other site 889378005107 active site 889378005108 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 889378005109 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 889378005110 active site 889378005111 HIGH motif; other site 889378005112 dimer interface [polypeptide binding]; other site 889378005113 KMSKS motif; other site 889378005114 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 889378005115 Domain of unknown function DUF20; Region: UPF0118; pfam01594 889378005116 flavoprotein, HI0933 family; Region: TIGR00275 889378005117 ParB-like nuclease domain; Region: ParB; smart00470 889378005118 aconitate hydratase; Validated; Region: PRK09277 889378005119 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 889378005120 substrate binding site [chemical binding]; other site 889378005121 ligand binding site [chemical binding]; other site 889378005122 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 889378005123 substrate binding site [chemical binding]; other site 889378005124 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 889378005125 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 889378005126 ligand binding site [chemical binding]; other site 889378005127 short chain dehydrogenase; Provisional; Region: PRK06181 889378005128 classical (c) SDRs; Region: SDR_c; cd05233 889378005129 NAD(P) binding site [chemical binding]; other site 889378005130 active site 889378005131 lipoyl synthase; Provisional; Region: PRK05481 889378005132 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 889378005133 FeS/SAM binding site; other site 889378005134 EVE domain; Region: EVE; cl00728 889378005135 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 889378005136 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 889378005137 FAD binding pocket [chemical binding]; other site 889378005138 conserved FAD binding motif [chemical binding]; other site 889378005139 phosphate binding motif [ion binding]; other site 889378005140 beta-alpha-beta structure motif; other site 889378005141 NAD binding pocket [chemical binding]; other site 889378005142 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 889378005143 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 889378005144 dimer interface [polypeptide binding]; other site 889378005145 phosphorylation site [posttranslational modification] 889378005146 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 889378005147 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 889378005148 active site 889378005149 phosphorylation site [posttranslational modification] 889378005150 intermolecular recognition site; other site 889378005151 dimerization interface [polypeptide binding]; other site 889378005152 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 889378005153 classical (c) SDRs; Region: SDR_c; cd05233 889378005154 NAD(P) binding site [chemical binding]; other site 889378005155 active site 889378005156 serine/threonine protein kinase; Provisional; Region: PRK11768 889378005157 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 889378005158 catalytic loop [active] 889378005159 iron binding site [ion binding]; other site 889378005160 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 889378005161 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 889378005162 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 889378005163 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 889378005164 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 889378005165 dimer interface [polypeptide binding]; other site 889378005166 [2Fe-2S] cluster binding site [ion binding]; other site 889378005167 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 889378005168 SLBB domain; Region: SLBB; pfam10531 889378005169 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 889378005170 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 889378005171 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 889378005172 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 889378005173 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 889378005174 putative dimer interface [polypeptide binding]; other site 889378005175 [2Fe-2S] cluster binding site [ion binding]; other site 889378005176 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 889378005177 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 889378005178 ABC transporter ATPase component; Reviewed; Region: PRK11147 889378005179 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 889378005180 ABC transporter; Region: ABC_tran_2; pfam12848 889378005181 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 889378005182 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 889378005183 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 889378005184 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 889378005185 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 889378005186 RNA binding site [nucleotide binding]; other site 889378005187 Domain of unknown function DUF20; Region: UPF0118; pfam01594 889378005188 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 889378005189 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 889378005190 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 889378005191 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 889378005192 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 889378005193 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 889378005194 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 889378005195 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 889378005196 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 889378005197 active sites [active] 889378005198 tetramer interface [polypeptide binding]; other site 889378005199 4-coumarate--CoA ligase, photoactive yellow protein activation family; Region: 4_coum_CoA_lig; TIGR02372 889378005200 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 889378005201 acyl-activating enzyme (AAE) consensus motif; other site 889378005202 AMP binding site [chemical binding]; other site 889378005203 active site 889378005204 CoA binding site [chemical binding]; other site 889378005205 Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]; Region: COG2348 889378005206 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 889378005207 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 889378005208 Protein of unknown function, DUF482; Region: DUF482; pfam04339 889378005209 methionine sulfoxide reductase A; Provisional; Region: PRK14054 889378005210 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 889378005211 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 889378005212 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 889378005213 active site 889378005214 phosphorylation site [posttranslational modification] 889378005215 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 889378005216 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 889378005217 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 889378005218 acyl-activating enzyme (AAE) consensus motif; other site 889378005219 putative AMP binding site [chemical binding]; other site 889378005220 putative active site [active] 889378005221 putative CoA binding site [chemical binding]; other site 889378005222 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 889378005223 Low molecular weight phosphatase family; Region: LMWPc; cl00105 889378005224 active site 889378005225 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 889378005226 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 889378005227 active site 889378005228 phosphorylation site [posttranslational modification] 889378005229 intermolecular recognition site; other site 889378005230 dimerization interface [polypeptide binding]; other site 889378005231 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 889378005232 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 889378005233 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 889378005234 putative substrate translocation pore; other site 889378005235 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 889378005236 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 889378005237 FecR protein; Region: FecR; pfam04773 889378005238 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 889378005239 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 889378005240 ligand binding site [chemical binding]; other site 889378005241 Response regulator receiver domain; Region: Response_reg; pfam00072 889378005242 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 889378005243 active site 889378005244 phosphorylation site [posttranslational modification] 889378005245 intermolecular recognition site; other site 889378005246 dimerization interface [polypeptide binding]; other site 889378005247 PrcB C-terminal; Region: PrcB_C; pfam14343 889378005248 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 889378005249 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 889378005250 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 889378005251 Walker A/P-loop; other site 889378005252 ATP binding site [chemical binding]; other site 889378005253 Q-loop/lid; other site 889378005254 ABC transporter signature motif; other site 889378005255 Walker B; other site 889378005256 D-loop; other site 889378005257 H-loop/switch region; other site 889378005258 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 889378005259 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 889378005260 active site 889378005261 catalytic tetrad [active] 889378005262 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 889378005263 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 889378005264 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 889378005265 phosphoserine phosphatase SerB; Region: serB; TIGR00338 889378005266 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 889378005267 motif II; other site 889378005268 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 889378005269 intracellular protease, PfpI family; Region: PfpI; TIGR01382 889378005270 proposed catalytic triad [active] 889378005271 conserved cys residue [active] 889378005272 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 889378005273 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 889378005274 active site 889378005275 FMN binding site [chemical binding]; other site 889378005276 substrate binding site [chemical binding]; other site 889378005277 putative catalytic residue [active] 889378005278 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 889378005279 hypothetical protein; Provisional; Region: PRK00955 889378005280 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 889378005281 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 889378005282 FOG: WD40-like repeat [Function unknown]; Region: COG1520 889378005283 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 889378005284 structural tetrad; other site 889378005285 Protein-tyrosine phosphatase; Region: Y_phosphatase; pfam00102 889378005286 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 889378005287 active site 889378005288 catalytic residues [active] 889378005289 seryl-tRNA synthetase; Provisional; Region: PRK05431 889378005290 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 889378005291 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 889378005292 dimer interface [polypeptide binding]; other site 889378005293 active site 889378005294 motif 1; other site 889378005295 motif 2; other site 889378005296 motif 3; other site 889378005297 Sialic acid synthase [Cell envelope biogenesis, outer membrane]; Region: SpsE; COG2089 889378005298 NeuB family; Region: NeuB; pfam03102 889378005299 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 889378005300 NeuB binding interface [polypeptide binding]; other site 889378005301 putative substrate binding site [chemical binding]; other site 889378005302 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 889378005303 Peptidase family U32; Region: Peptidase_U32; pfam01136 889378005304 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 889378005305 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 889378005306 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 889378005307 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 889378005308 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 889378005309 E3 interaction surface; other site 889378005310 lipoyl attachment site [posttranslational modification]; other site 889378005311 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 889378005312 e3 binding domain; Region: E3_binding; pfam02817 889378005313 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 889378005314 pyruvate dehydrogenase subunit beta; Validated; Region: PRK09212 889378005315 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 889378005316 alpha subunit interface [polypeptide binding]; other site 889378005317 TPP binding site [chemical binding]; other site 889378005318 heterodimer interface [polypeptide binding]; other site 889378005319 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 889378005320 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 889378005321 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 889378005322 tetramer interface [polypeptide binding]; other site 889378005323 TPP-binding site [chemical binding]; other site 889378005324 heterodimer interface [polypeptide binding]; other site 889378005325 phosphorylation loop region [posttranslational modification] 889378005326 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 889378005327 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 889378005328 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 889378005329 FMN-binding domain; Region: FMN_bind; pfam04205 889378005330 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 889378005331 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 889378005332 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 889378005333 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 889378005334 catalytic loop [active] 889378005335 iron binding site [ion binding]; other site 889378005336 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 889378005337 FAD binding pocket [chemical binding]; other site 889378005338 conserved FAD binding motif [chemical binding]; other site 889378005339 phosphate binding motif [ion binding]; other site 889378005340 beta-alpha-beta structure motif; other site 889378005341 NAD binding pocket [chemical binding]; other site 889378005342 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 889378005343 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 889378005344 active site 889378005345 phosphorylation site [posttranslational modification] 889378005346 intermolecular recognition site; other site 889378005347 dimerization interface [polypeptide binding]; other site 889378005348 PAS fold; Region: PAS; pfam00989 889378005349 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; cl02459 889378005350 putative active site [active] 889378005351 heme pocket [chemical binding]; other site 889378005352 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 889378005353 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 889378005354 metal binding site [ion binding]; metal-binding site 889378005355 active site 889378005356 I-site; other site 889378005357 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 889378005358 fumarate hydratase; Reviewed; Region: fumC; PRK00485 889378005359 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 889378005360 tetramer interface [polypeptide binding]; other site 889378005361 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 889378005362 PAS domain; Region: PAS_9; pfam13426 889378005363 putative active site [active] 889378005364 heme pocket [chemical binding]; other site 889378005365 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 889378005366 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 889378005367 metal binding site [ion binding]; metal-binding site 889378005368 active site 889378005369 I-site; other site 889378005370 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 889378005371 shikimate kinase; Reviewed; Region: aroK; PRK00131 889378005372 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 889378005373 ADP binding site [chemical binding]; other site 889378005374 magnesium binding site [ion binding]; other site 889378005375 putative shikimate binding site; other site 889378005376 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 889378005377 Rubredoxin; Region: Rubredoxin; pfam00301 889378005378 iron binding site [ion binding]; other site 889378005379 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 889378005380 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 889378005381 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 889378005382 ABC transporter; Region: ABC_tran_2; pfam12848 889378005383 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 889378005384 Methanothermobacter thermautotrophicus Mth212-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Mth212-like_AP-endo; cd09085 889378005385 active site 889378005386 putative catalytic site [active] 889378005387 phosphate binding site A [ion binding]; other site 889378005388 DNA binding site [nucleotide binding] 889378005389 metal binding site A [ion binding]; metal-binding site 889378005390 putative AP binding site [nucleotide binding]; other site 889378005391 putative metal binding site B [ion binding]; other site 889378005392 phosphate binding site B [ion binding]; other site 889378005393 Rhomboid family; Region: Rhomboid; cl11446 889378005394 peptide chain release factor 1; Validated; Region: prfA; PRK00591 889378005395 This domain is found in peptide chain release factors; Region: PCRF; smart00937 889378005396 RF-1 domain; Region: RF-1; pfam00472 889378005397 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 889378005398 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 889378005399 S-adenosylmethionine binding site [chemical binding]; other site 889378005400 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 889378005401 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 889378005402 Zn2+ binding site [ion binding]; other site 889378005403 Mg2+ binding site [ion binding]; other site 889378005404 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 889378005405 synthetase active site [active] 889378005406 NTP binding site [chemical binding]; other site 889378005407 metal binding site [ion binding]; metal-binding site 889378005408 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 889378005409 ACT domain; Region: ACT_4; pfam13291 889378005410 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 889378005411 dimer interface [polypeptide binding]; other site 889378005412 catalytic triad [active] 889378005413 peroxidatic and resolving cysteines [active] 889378005414 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 889378005415 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 889378005416 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 889378005417 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 889378005418 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 889378005419 S-adenosylmethionine binding site [chemical binding]; other site 889378005420 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 889378005421 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 889378005422 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 889378005423 Type II/IV secretion system protein; Region: T2SE; pfam00437 889378005424 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 889378005425 Walker A motif; other site 889378005426 ATP binding site [chemical binding]; other site 889378005427 Walker B motif; other site 889378005428 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 889378005429 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 889378005430 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 889378005431 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 889378005432 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 889378005433 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 889378005434 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 889378005435 active site 889378005436 catalytic tetrad [active] 889378005437 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 889378005438 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 889378005439 ligand binding site [chemical binding]; other site 889378005440 flexible hinge region; other site 889378005441 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; cl17432 889378005442 NMT1/THI5 like; Region: NMT1; pfam09084 889378005443 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 889378005444 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 889378005445 Walker A/P-loop; other site 889378005446 ATP binding site [chemical binding]; other site 889378005447 Q-loop/lid; other site 889378005448 ABC transporter signature motif; other site 889378005449 Walker B; other site 889378005450 D-loop; other site 889378005451 H-loop/switch region; other site 889378005452 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 889378005453 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 889378005454 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 889378005455 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 889378005456 ATP-grasp domain; Region: ATP-grasp_4; cl17255 889378005457 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 889378005458 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 889378005459 ATP-grasp domain; Region: ATP-grasp_4; cl17255 889378005460 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 889378005461 IMP binding site; other site 889378005462 dimer interface [polypeptide binding]; other site 889378005463 partial ornithine binding site; other site 889378005464 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 889378005465 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 889378005466 active site 889378005467 intersubunit interface [polypeptide binding]; other site 889378005468 catalytic residue [active] 889378005469 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 889378005470 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 889378005471 Zn binding site [ion binding]; other site 889378005472 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 889378005473 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 889378005474 Zn binding site [ion binding]; other site 889378005475 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 889378005476 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 889378005477 active site 889378005478 phosphorylation site [posttranslational modification] 889378005479 intermolecular recognition site; other site 889378005480 dimerization interface [polypeptide binding]; other site 889378005481 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 889378005482 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 889378005483 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 889378005484 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 889378005485 ATP binding site [chemical binding]; other site 889378005486 G-X-G motif; other site 889378005487 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 889378005488 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 889378005489 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 889378005490 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 889378005491 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 889378005492 DNA binding residues [nucleotide binding] 889378005493 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 889378005494 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 889378005495 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 889378005496 Peptidase family M23; Region: Peptidase_M23; pfam01551 889378005497 SurA N-terminal domain; Region: SurA_N_3; cl07813 889378005498 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 889378005499 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 889378005500 GTP-binding protein LepA; Provisional; Region: PRK05433 889378005501 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 889378005502 G1 box; other site 889378005503 putative GEF interaction site [polypeptide binding]; other site 889378005504 GTP/Mg2+ binding site [chemical binding]; other site 889378005505 Switch I region; other site 889378005506 G2 box; other site 889378005507 G3 box; other site 889378005508 Switch II region; other site 889378005509 G4 box; other site 889378005510 G5 box; other site 889378005511 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 889378005512 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 889378005513 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 889378005514 Response regulator receiver domain; Region: Response_reg; pfam00072 889378005515 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 889378005516 active site 889378005517 phosphorylation site [posttranslational modification] 889378005518 intermolecular recognition site; other site 889378005519 dimerization interface [polypeptide binding]; other site 889378005520 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 889378005521 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 889378005522 putative active site [active] 889378005523 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 889378005524 dimer interface [polypeptide binding]; other site 889378005525 phosphorylation site [posttranslational modification] 889378005526 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 889378005527 ATP binding site [chemical binding]; other site 889378005528 Mg2+ binding site [ion binding]; other site 889378005529 G-X-G motif; other site 889378005530 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 889378005531 Response regulator receiver domain; Region: Response_reg; pfam00072 889378005532 active site 889378005533 phosphorylation site [posttranslational modification] 889378005534 intermolecular recognition site; other site 889378005535 dimerization interface [polypeptide binding]; other site 889378005536 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 889378005537 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 889378005538 active site 889378005539 phosphorylation site [posttranslational modification] 889378005540 intermolecular recognition site; other site 889378005541 dimerization interface [polypeptide binding]; other site 889378005542 CheB methylesterase; Region: CheB_methylest; pfam01339 889378005543 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 889378005544 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 889378005545 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 889378005546 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 889378005547 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 889378005548 putative binding surface; other site 889378005549 active site 889378005550 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 889378005551 ATP binding site [chemical binding]; other site 889378005552 Mg2+ binding site [ion binding]; other site 889378005553 G-X-G motif; other site 889378005554 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 889378005555 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 889378005556 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 889378005557 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 889378005558 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 889378005559 protein binding site [polypeptide binding]; other site 889378005560 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 889378005561 FtsH Extracellular; Region: FtsH_ext; pfam06480 889378005562 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 889378005563 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 889378005564 Walker A motif; other site 889378005565 ATP binding site [chemical binding]; other site 889378005566 Walker B motif; other site 889378005567 arginine finger; other site 889378005568 Peptidase family M41; Region: Peptidase_M41; pfam01434 889378005569 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 889378005570 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 889378005571 Ligand Binding Site [chemical binding]; other site 889378005572 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 889378005573 putative active site [active] 889378005574 catalytic residue [active] 889378005575 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 889378005576 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 889378005577 5S rRNA interface [nucleotide binding]; other site 889378005578 CTC domain interface [polypeptide binding]; other site 889378005579 L16 interface [polypeptide binding]; other site 889378005580 regulatory protein SpoVG; Reviewed; Region: PRK13259 889378005581 Oligomerisation domain; Region: Oligomerisation; pfam02410 889378005582 Transcriptional regulator [Transcription]; Region: LytR; COG1316 889378005583 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 889378005584 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 889378005585 putative nicotinate-nucleotide adenylyltransferase; Validated; Region: nadD; PRK07152 889378005586 active site 889378005587 (T/H)XGH motif; other site 889378005588 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 889378005589 GTPase CgtA; Reviewed; Region: obgE; PRK12299 889378005590 GTP1/OBG; Region: GTP1_OBG; pfam01018 889378005591 Obg GTPase; Region: Obg; cd01898 889378005592 G1 box; other site 889378005593 GTP/Mg2+ binding site [chemical binding]; other site 889378005594 Switch I region; other site 889378005595 G2 box; other site 889378005596 G3 box; other site 889378005597 Switch II region; other site 889378005598 G4 box; other site 889378005599 G5 box; other site 889378005600 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 889378005601 Protein of unknown function (DUF464); Region: DUF464; cl01080 889378005602 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 889378005603 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 889378005604 catalytic residues [active] 889378005605 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 889378005606 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 889378005607 ATP binding site [chemical binding]; other site 889378005608 putative Mg++ binding site [ion binding]; other site 889378005609 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 889378005610 nucleotide binding region [chemical binding]; other site 889378005611 ATP-binding site [chemical binding]; other site 889378005612 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 889378005613 HRDC domain; Region: HRDC; pfam00570 889378005614 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 889378005615 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 889378005616 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 889378005617 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 889378005618 active site 889378005619 dimer interface [polypeptide binding]; other site 889378005620 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 889378005621 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 889378005622 active site 889378005623 FMN binding site [chemical binding]; other site 889378005624 substrate binding site [chemical binding]; other site 889378005625 3Fe-4S cluster binding site [ion binding]; other site 889378005626 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 889378005627 domain interface; other site 889378005628 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 889378005629 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 889378005630 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 889378005631 active site 889378005632 HIGH motif; other site 889378005633 KMSK motif region; other site 889378005634 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 889378005635 tRNA binding surface [nucleotide binding]; other site 889378005636 anticodon binding site; other site 889378005637 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 889378005638 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 889378005639 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 889378005640 active site 889378005641 catalytic residues [active] 889378005642 metal binding site [ion binding]; metal-binding site 889378005643 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 889378005644 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 889378005645 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 889378005646 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 889378005647 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 889378005648 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 889378005649 ATP-grasp domain; Region: ATP-grasp_4; cl17255 889378005650 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 889378005651 IMP binding site; other site 889378005652 dimer interface [polypeptide binding]; other site 889378005653 interdomain contacts; other site 889378005654 partial ornithine binding site; other site 889378005655 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 889378005656 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 889378005657 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 889378005658 catalytic site [active] 889378005659 subunit interface [polypeptide binding]; other site 889378005660 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 889378005661 active site 889378005662 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 889378005663 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 889378005664 P-loop; other site 889378005665 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 889378005666 UGMP family protein; Validated; Region: PRK09604 889378005667 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 889378005668 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 889378005669 NodB motif; other site 889378005670 putative active site [active] 889378005671 putative catalytic site [active] 889378005672 Zn binding site [ion binding]; other site 889378005673 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 889378005674 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 889378005675 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 889378005676 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 889378005677 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 889378005678 DNA binding residues [nucleotide binding] 889378005679 Rod binding protein; Region: Rod-binding; cl01626 889378005680 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12816 889378005681 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 889378005682 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 889378005683 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 889378005684 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 889378005685 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 889378005686 Protein of unknown function (DUF3185); Region: DUF3185; pfam11381 889378005687 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 889378005688 CRP/FNR family transcriptional regulator; Provisional; Region: PRK13918 889378005689 ligand binding site [chemical binding]; other site 889378005690 flexible hinge region; other site 889378005691 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 889378005692 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 889378005693 ligand binding site [chemical binding]; other site 889378005694 flexible hinge region; other site 889378005695 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 889378005696 binding surface 889378005697 TPR motif; other site 889378005698 Tetratricopeptide repeat; Region: TPR_12; pfam13424 889378005699 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 889378005700 Peptidase family M23; Region: Peptidase_M23; pfam01551 889378005701 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 889378005702 Transglycosylase; Region: Transgly; pfam00912 889378005703 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 889378005704 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 889378005705 ParB-like nuclease domain; Region: ParBc; pfam02195 889378005706 bifunctional aspartate carbamoyltransferase catalytic subunit/aspartate carbamoyltransferase regulatory subunit; Provisional; Region: pyrB; PRK13376 889378005707 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 889378005708 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 889378005709 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 889378005710 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 889378005711 Borrelia P83/100 protein; Region: Borrelia_P83; pfam05262 889378005712 Borrelia P83/100 protein; Region: Borrelia_P83; pfam05262 889378005713 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 889378005714 PQQ-like domain; Region: PQQ_2; pfam13360 889378005715 TRAM domain; Region: TRAM; pfam01938 889378005716 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 889378005717 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 889378005718 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 889378005719 CoA binding domain; Region: CoA_binding; smart00881 889378005720 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 889378005721 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 889378005722 active site 889378005723 HIGH motif; other site 889378005724 dimer interface [polypeptide binding]; other site 889378005725 KMSKS motif; other site 889378005726 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 889378005727 RNA binding surface [nucleotide binding]; other site 889378005728 glycyl-tRNA synthetase; Provisional; Region: PRK04173 889378005729 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 889378005730 dimer interface [polypeptide binding]; other site 889378005731 motif 1; other site 889378005732 active site 889378005733 motif 2; other site 889378005734 motif 3; other site 889378005735 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 889378005736 anticodon binding site; other site 889378005737 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 889378005738 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 889378005739 HIGH motif; other site 889378005740 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 889378005741 active site 889378005742 KMSKS motif; other site 889378005743 aminotransferase AlaT; Validated; Region: PRK09265 889378005744 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 889378005745 pyridoxal 5'-phosphate binding site [chemical binding]; other site 889378005746 homodimer interface [polypeptide binding]; other site 889378005747 catalytic residue [active] 889378005748 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 889378005749 Zn2+ binding site [ion binding]; other site 889378005750 Mg2+ binding site [ion binding]; other site 889378005751 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 889378005752 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 889378005753 Clp amino terminal domain; Region: Clp_N; pfam02861 889378005754 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 889378005755 Walker A motif; other site 889378005756 ATP binding site [chemical binding]; other site 889378005757 Walker B motif; other site 889378005758 arginine finger; other site 889378005759 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 889378005760 Walker A motif; other site 889378005761 ATP binding site [chemical binding]; other site 889378005762 Walker B motif; other site 889378005763 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 889378005764 Uncharacterized conserved protein [Function unknown]; Region: COG2127 889378005765 von Willebrand factor type A domain; Region: VWA_2; pfam13519 889378005766 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 889378005767 binding surface 889378005768 TPR motif; other site 889378005769 TPR repeat; Region: TPR_11; pfam13414 889378005770 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 889378005771 binding surface 889378005772 TPR motif; other site 889378005773 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 889378005774 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 889378005775 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 889378005776 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 889378005777 Predicted amidohydrolase [General function prediction only]; Region: COG0388 889378005778 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 889378005779 putative active site [active] 889378005780 catalytic triad [active] 889378005781 putative dimer interface [polypeptide binding]; other site 889378005782 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 889378005783 transcription termination factor Rho; Provisional; Region: rho; PRK09376 889378005784 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 889378005785 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 889378005786 RNA binding site [nucleotide binding]; other site 889378005787 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 889378005788 multimer interface [polypeptide binding]; other site 889378005789 Walker A motif; other site 889378005790 ATP binding site [chemical binding]; other site 889378005791 Walker B motif; other site 889378005792 Competence-damaged protein; Region: CinA; pfam02464 889378005793 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 889378005794 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 889378005795 binding surface 889378005796 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 889378005797 Response regulator receiver domain; Region: Response_reg; pfam00072 889378005798 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 889378005799 active site 889378005800 phosphorylation site [posttranslational modification] 889378005801 intermolecular recognition site; other site 889378005802 dimerization interface [polypeptide binding]; other site 889378005803 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 889378005804 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 889378005805 putative active site [active] 889378005806 catalytic triad [active] 889378005807 putative dimer interface [polypeptide binding]; other site 889378005808 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 889378005809 IHF dimer interface [polypeptide binding]; other site 889378005810 IHF - DNA interface [nucleotide binding]; other site 889378005811 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 889378005812 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 889378005813 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 889378005814 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 889378005815 Walker A/P-loop; other site 889378005816 ATP binding site [chemical binding]; other site 889378005817 Q-loop/lid; other site 889378005818 ABC transporter signature motif; other site 889378005819 Walker B; other site 889378005820 D-loop; other site 889378005821 H-loop/switch region; other site 889378005822 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 889378005823 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 889378005824 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 889378005825 Walker A/P-loop; other site 889378005826 ATP binding site [chemical binding]; other site 889378005827 Q-loop/lid; other site 889378005828 ABC transporter signature motif; other site 889378005829 Walker B; other site 889378005830 D-loop; other site 889378005831 H-loop/switch region; other site 889378005832 PSP1 C-terminal conserved region; Region: PSP1; cl00770 889378005833 Protein of unknown function (DUF327); Region: DUF327; pfam03885 889378005834 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 889378005835 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 889378005836 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 889378005837 Peptidase family M23; Region: Peptidase_M23; pfam01551 889378005838 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 889378005839 active site 889378005840 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 889378005841 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 889378005842 active site 889378005843 tetramer interface [polypeptide binding]; other site 889378005844 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 889378005845 active site 889378005846 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 889378005847 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 889378005848 dimerization interface [polypeptide binding]; other site 889378005849 putative ATP binding site [chemical binding]; other site 889378005850 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 889378005851 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 889378005852 active site 889378005853 substrate binding site [chemical binding]; other site 889378005854 cosubstrate binding site; other site 889378005855 catalytic site [active] 889378005856 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 889378005857 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 889378005858 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 889378005859 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 889378005860 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 889378005861 chaperone protein DnaJ; Provisional; Region: PRK14277 889378005862 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 889378005863 HSP70 interaction site [polypeptide binding]; other site 889378005864 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 889378005865 Zn binding sites [ion binding]; other site 889378005866 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 889378005867 dimer interface [polypeptide binding]; other site 889378005868 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 889378005869 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 889378005870 nucleotide binding site [chemical binding]; other site 889378005871 NEF interaction site [polypeptide binding]; other site 889378005872 SBD interface [polypeptide binding]; other site 889378005873 GrpE; Region: GrpE; pfam01025 889378005874 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 889378005875 dimer interface [polypeptide binding]; other site 889378005876 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 889378005877 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 889378005878 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 889378005879 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 889378005880 motif II; other site 889378005881 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 889378005882 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 889378005883 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 889378005884 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 889378005885 Tetratricopeptide repeat; Region: TPR_16; pfam13432 889378005886 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 889378005887 binding surface 889378005888 TPR motif; other site 889378005889 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 889378005890 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 889378005891 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 889378005892 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 889378005893 DNA binding residues [nucleotide binding] 889378005894 GTP-binding protein Der; Reviewed; Region: PRK00093 889378005895 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 889378005896 G1 box; other site 889378005897 GTP/Mg2+ binding site [chemical binding]; other site 889378005898 G2 box; other site 889378005899 Switch I region; other site 889378005900 G3 box; other site 889378005901 Switch II region; other site 889378005902 G4 box; other site 889378005903 G5 box; other site 889378005904 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 889378005905 G1 box; other site 889378005906 GTP/Mg2+ binding site [chemical binding]; other site 889378005907 Switch I region; other site 889378005908 G2 box; other site 889378005909 G3 box; other site 889378005910 Switch II region; other site 889378005911 G4 box; other site 889378005912 G5 box; other site 889378005913 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 889378005914 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 889378005915 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 889378005916 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 889378005917 Sporulation and spore germination; Region: Germane; pfam10646 889378005918 hemolysin TlyA family protein; Region: tly; TIGR00478 889378005919 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 889378005920 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 889378005921 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 889378005922 putative active site [active] 889378005923 metal binding site [ion binding]; metal-binding site 889378005924 homodimer binding site [polypeptide binding]; other site 889378005925 ribonuclease Y; Region: RNase_Y; TIGR03319 889378005926 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 889378005927 Zn2+ binding site [ion binding]; other site 889378005928 Mg2+ binding site [ion binding]; other site 889378005929 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; cl01973 889378005930 Maf-like protein; Region: Maf; pfam02545 889378005931 Maf_Ham1. Maf, a nucleotide binding protein, has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea. A Ham1-related protein from Methanococcus jannaschii is a novel NTPase that has been shown to hydrolyze nonstandard...; Region: Maf_Ham1; cl00276 889378005932 putative active site [active] 889378005933 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 889378005934 rRNA interaction site [nucleotide binding]; other site 889378005935 S8 interaction site; other site 889378005936 putative laminin-1 binding site; other site 889378005937 elongation factor Ts; Provisional; Region: tsf; PRK09377 889378005938 UBA/TS-N domain; Region: UBA; pfam00627 889378005939 Elongation factor TS; Region: EF_TS; pfam00889 889378005940 Elongation factor TS; Region: EF_TS; pfam00889 889378005941 ribosome recycling factor; Reviewed; Region: frr; PRK00083 889378005942 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 889378005943 hinge region; other site 889378005944 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 889378005945 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 889378005946 catalytic residue [active] 889378005947 putative FPP diphosphate binding site; other site 889378005948 putative FPP binding hydrophobic cleft; other site 889378005949 dimer interface [polypeptide binding]; other site 889378005950 putative IPP diphosphate binding site; other site 889378005951 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 889378005952 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 889378005953 RIP metalloprotease RseP; Region: TIGR00054 889378005954 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 889378005955 active site 889378005956 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 889378005957 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 889378005958 putative substrate binding region [chemical binding]; other site 889378005959 FOG: WD40 repeat [General function prediction only]; Region: COG2319 889378005960 Late competence development protein ComFB; Region: ComFB; pfam10719 889378005961 replicative DNA helicase; Region: DnaB; TIGR00665 889378005962 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 889378005963 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 889378005964 Walker A motif; other site 889378005965 ATP binding site [chemical binding]; other site 889378005966 Walker B motif; other site 889378005967 DNA binding loops [nucleotide binding] 889378005968 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 889378005969 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 889378005970 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 889378005971 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 889378005972 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 889378005973 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 889378005974 dimer interface [polypeptide binding]; other site 889378005975 ssDNA binding site [nucleotide binding]; other site 889378005976 tetramer (dimer of dimers) interface [polypeptide binding]; other site 889378005977 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 889378005978 pyruvate kinase; Provisional; Region: PRK06354 889378005979 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 889378005980 domain interfaces; other site 889378005981 active site 889378005982 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl17700 889378005983 Nif-specific regulatory protein; Region: nifA; TIGR01817 889378005984 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 889378005985 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 889378005986 Walker A motif; other site 889378005987 ATP binding site [chemical binding]; other site 889378005988 Walker B motif; other site 889378005989 arginine finger; other site 889378005990 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 889378005991 ammonium transporter; Region: amt; TIGR00836 889378005992 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 889378005993 Nitrogen regulatory protein P-II; Region: P-II; smart00938 889378005994 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 889378005995 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 889378005996 nucleotide binding site [chemical binding]; other site 889378005997 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 889378005998 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 889378005999 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 889378006000 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 889378006001 Walker A/P-loop; other site 889378006002 ATP binding site [chemical binding]; other site 889378006003 Q-loop/lid; other site 889378006004 ABC transporter signature motif; other site 889378006005 Walker B; other site 889378006006 D-loop; other site 889378006007 H-loop/switch region; other site 889378006008 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 889378006009 Walker A/P-loop; other site 889378006010 ATP binding site [chemical binding]; other site 889378006011 Q-loop/lid; other site 889378006012 ABC transporter signature motif; other site 889378006013 Walker B; other site 889378006014 D-loop; other site 889378006015 H-loop/switch region; other site 889378006016 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 889378006017 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 889378006018 TM-ABC transporter signature motif; other site 889378006019 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 889378006020 TM-ABC transporter signature motif; other site 889378006021 argininosuccinate lyase; Provisional; Region: PRK00855 889378006022 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 889378006023 active sites [active] 889378006024 tetramer interface [polypeptide binding]; other site 889378006025 Domain of unknown function (DUF368); Region: DUF368; pfam04018 889378006026 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 889378006027 Clp amino terminal domain; Region: Clp_N; pfam02861 889378006028 Clp amino terminal domain; Region: Clp_N; pfam02861 889378006029 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 889378006030 Walker A motif; other site 889378006031 ATP binding site [chemical binding]; other site 889378006032 Walker B motif; other site 889378006033 arginine finger; other site 889378006034 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 889378006035 Walker A motif; other site 889378006036 ATP binding site [chemical binding]; other site 889378006037 Walker B motif; other site 889378006038 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 889378006039 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 889378006040 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 889378006041 active site residue [active] 889378006042 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 889378006043 active site residue [active] 889378006044 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 889378006045 Transcription factor S-II (TFIIS); Region: TFIIS_C; cl02609 889378006046 ATP cone domain; Region: ATP-cone; pfam03477 889378006047 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 889378006048 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 889378006049 Zn2+ binding site [ion binding]; other site 889378006050 Mg2+ binding site [ion binding]; other site 889378006051 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 889378006052 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 889378006053 RNA binding surface [nucleotide binding]; other site 889378006054 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 889378006055 active site 889378006056 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 889378006057 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 889378006058 TPR repeat; Region: TPR_11; pfam13414 889378006059 binding surface 889378006060 TPR motif; other site 889378006061 TPR repeat; Region: TPR_11; pfam13414 889378006062 CheD chemotactic sensory transduction; Region: CheD; cl00810 889378006063 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 889378006064 active site 889378006065 NTP binding site [chemical binding]; other site 889378006066 metal binding triad [ion binding]; metal-binding site 889378006067 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 889378006068 chorismate binding enzyme; Region: Chorismate_bind; cl10555 889378006069 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 889378006070 pyridoxal 5'-phosphate binding site [chemical binding]; other site 889378006071 homodimer interface [polypeptide binding]; other site 889378006072 catalytic residue [active] 889378006073 histidyl-tRNA synthetase; Region: hisS; TIGR00442 889378006074 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 889378006075 dimer interface [polypeptide binding]; other site 889378006076 motif 1; other site 889378006077 active site 889378006078 motif 2; other site 889378006079 motif 3; other site 889378006080 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 889378006081 anticodon binding site; other site 889378006082 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 889378006083 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 889378006084 ATP binding site [chemical binding]; other site 889378006085 putative Mg++ binding site [ion binding]; other site 889378006086 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 889378006087 nucleotide binding region [chemical binding]; other site 889378006088 ATP-binding site [chemical binding]; other site 889378006089 Helicase associated domain (HA2); Region: HA2; pfam04408 889378006090 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 889378006091 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 889378006092 dimer interface [polypeptide binding]; other site 889378006093 active site 889378006094 metal binding site [ion binding]; metal-binding site 889378006095 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 889378006096 dimerization interface [polypeptide binding]; other site 889378006097 putative DNA binding site [nucleotide binding]; other site 889378006098 putative Zn2+ binding site [ion binding]; other site 889378006099 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 889378006100 Peptidase family M23; Region: Peptidase_M23; pfam01551 889378006101 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 889378006102 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 889378006103 mce related protein; Region: MCE; pfam02470 889378006104 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 889378006105 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 889378006106 Walker A/P-loop; other site 889378006107 ATP binding site [chemical binding]; other site 889378006108 Q-loop/lid; other site 889378006109 ABC transporter signature motif; other site 889378006110 Walker B; other site 889378006111 D-loop; other site 889378006112 H-loop/switch region; other site 889378006113 Permease; Region: Permease; pfam02405 889378006114 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 889378006115 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 889378006116 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 889378006117 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 889378006118 active site 889378006119 catalytic tetrad [active] 889378006120 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 889378006121 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 889378006122 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 889378006123 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 889378006124 active site 889378006125 catalytic site [active] 889378006126 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 889378006127 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 889378006128 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 889378006129 dimer interface [polypeptide binding]; other site 889378006130 putative CheW interface [polypeptide binding]; other site 889378006131 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 889378006132 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 889378006133 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 889378006134 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 889378006135 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 889378006136 homodimer interface [polypeptide binding]; other site 889378006137 substrate-cofactor binding pocket; other site 889378006138 pyridoxal 5'-phosphate binding site [chemical binding]; other site 889378006139 catalytic residue [active] 889378006140 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 889378006141 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 889378006142 dimer interface [polypeptide binding]; other site 889378006143 pyridoxal 5'-phosphate binding site [chemical binding]; other site 889378006144 catalytic residue [active] 889378006145 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 889378006146 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 889378006147 ligand binding site [chemical binding]; other site 889378006148 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 889378006149 RNA binding site [nucleotide binding]; other site 889378006150 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 889378006151 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 889378006152 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 889378006153 active site 889378006154 catalytic site [active] 889378006155 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 889378006156 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 889378006157 putative catalytic cysteine [active] 889378006158 gamma-glutamyl kinase; Provisional; Region: PRK05429 889378006159 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 889378006160 nucleotide binding site [chemical binding]; other site 889378006161 homotetrameric interface [polypeptide binding]; other site 889378006162 putative phosphate binding site [ion binding]; other site 889378006163 putative allosteric binding site; other site 889378006164 PUA domain; Region: PUA; pfam01472 889378006165 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 889378006166 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 889378006167 active site 889378006168 metal binding site [ion binding]; metal-binding site 889378006169 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 889378006170 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 889378006171 acetylornithine deacetylase; Provisional; Region: PRK07522 889378006172 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 889378006173 metal binding site [ion binding]; metal-binding site 889378006174 putative dimer interface [polypeptide binding]; other site 889378006175 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 889378006176 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 889378006177 ATP binding site [chemical binding]; other site 889378006178 Mg2+ binding site [ion binding]; other site 889378006179 G-X-G motif; other site 889378006180 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 889378006181 anchoring element; other site 889378006182 dimer interface [polypeptide binding]; other site 889378006183 ATP binding site [chemical binding]; other site 889378006184 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 889378006185 active site 889378006186 putative metal-binding site [ion binding]; other site 889378006187 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 889378006188 DNA topoisomerase IV subunit A; Provisional; Region: PRK09631 889378006189 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; cl00148 889378006190 CAP-like domain; other site 889378006191 active site 889378006192 primary dimer interface [polypeptide binding]; other site 889378006193 Response regulator receiver domain; Region: Response_reg; pfam00072 889378006194 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 889378006195 active site 889378006196 phosphorylation site [posttranslational modification] 889378006197 intermolecular recognition site; other site 889378006198 dimerization interface [polypeptide binding]; other site 889378006199 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 889378006200 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 889378006201 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 889378006202 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 889378006203 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 889378006204 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 889378006205 dimer interface [polypeptide binding]; other site 889378006206 putative CheW interface [polypeptide binding]; other site 889378006207 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 889378006208 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 889378006209 active site 889378006210 HIGH motif; other site 889378006211 nucleotide binding site [chemical binding]; other site 889378006212 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 889378006213 KMSKS motif; other site 889378006214 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 889378006215 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 889378006216 glycogen binding site [chemical binding]; other site 889378006217 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 889378006218 active site 889378006219 phosphorylation site [posttranslational modification] 889378006220 intermolecular recognition site; other site 889378006221 hypothetical protein; Reviewed; Region: PRK00024 889378006222 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 889378006223 MPN+ (JAMM) motif; other site 889378006224 Zinc-binding site [ion binding]; other site 889378006225 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 889378006226 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 889378006227 FMN binding site [chemical binding]; other site 889378006228 active site 889378006229 catalytic residues [active] 889378006230 substrate binding site [chemical binding]; other site 889378006231 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; cl00391 889378006232 active site clefts [active] 889378006233 zinc binding site [ion binding]; other site 889378006234 dimer interface [polypeptide binding]; other site 889378006235 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 889378006236 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 889378006237 Walker A/P-loop; other site 889378006238 ATP binding site [chemical binding]; other site 889378006239 Q-loop/lid; other site 889378006240 ABC transporter signature motif; other site 889378006241 Walker B; other site 889378006242 D-loop; other site 889378006243 H-loop/switch region; other site 889378006244 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 889378006245 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 889378006246 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 889378006247 Walker A/P-loop; other site 889378006248 ATP binding site [chemical binding]; other site 889378006249 Q-loop/lid; other site 889378006250 ABC transporter signature motif; other site 889378006251 Walker B; other site 889378006252 D-loop; other site 889378006253 H-loop/switch region; other site 889378006254 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 889378006255 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 889378006256 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 889378006257 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 889378006258 dimer interface [polypeptide binding]; other site 889378006259 conserved gate region; other site 889378006260 ABC-ATPase subunit interface; other site 889378006261 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 889378006262 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 889378006263 dimer interface [polypeptide binding]; other site 889378006264 conserved gate region; other site 889378006265 ABC-ATPase subunit interface; other site 889378006266 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 889378006267 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 889378006268 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 889378006269 ATP binding site [chemical binding]; other site 889378006270 Mg2+ binding site [ion binding]; other site 889378006271 G-X-G motif; other site 889378006272 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 889378006273 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 889378006274 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 889378006275 nucleotide binding site [chemical binding]; other site 889378006276 Protein of unknown function (DUF342); Region: DUF342; pfam03961 889378006277 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 889378006278 RNA polymerase sigma factor WhiG; Reviewed; Region: PRK06288 889378006279 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 889378006280 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 889378006281 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 889378006282 DNA binding residues [nucleotide binding] 889378006283 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 889378006284 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 889378006285 P-loop; other site 889378006286 flagellar biosynthesis regulator FlhF; Provisional; Region: PRK12723 889378006287 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 889378006288 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 889378006289 FHIPEP family; Region: FHIPEP; pfam00771 889378006290 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 889378006291 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 889378006292 Bacterial export proteins, family 1; Region: Bac_export_1; pfam01311 889378006293 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 889378006294 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 889378006295 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 889378006296 flagellar motor switch protein FliN; Region: fliN; TIGR02480 889378006297 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 889378006298 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 889378006299 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 889378006300 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 889378006301 flagellar motor protein MotB; Validated; Region: motB; PRK06667 889378006302 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 889378006303 ligand binding site [chemical binding]; other site 889378006304 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 889378006305 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 889378006306 Flagellar protein (FlbD); Region: FlbD; pfam06289 889378006307 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 889378006308 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 889378006309 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 889378006310 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 889378006311 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 889378006312 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 889378006313 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 889378006314 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 889378006315 Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliI; COG1157 889378006316 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 889378006317 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 889378006318 Walker A motif/ATP binding site; other site 889378006319 Walker B motif; other site 889378006320 flagellar assembly protein H; Validated; Region: fliH; PRK06669 889378006321 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 889378006322 Flagellar assembly protein FliH; Region: FliH; pfam02108 889378006323 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 889378006324 FliG C-terminal domain; Region: FliG_C; pfam01706 889378006325 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 889378006326 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 889378006327 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 889378006328 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 889378006329 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 889378006330 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 889378006331 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 889378006332 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12624 889378006333 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 889378006334 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 889378006335 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 889378006336 Walker A motif; other site 889378006337 ATP binding site [chemical binding]; other site 889378006338 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 889378006339 Walker B motif; other site 889378006340 arginine finger; other site 889378006341 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 889378006342 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 889378006343 active site 889378006344 HslU subunit interaction site [polypeptide binding]; other site 889378006345 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 889378006346 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 889378006347 active site 889378006348 DNA binding site [nucleotide binding] 889378006349 Int/Topo IB signature motif; other site 889378006350 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 889378006351 DNA protecting protein DprA; Region: dprA; TIGR00732 889378006352 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 889378006353 TPR motif; other site 889378006354 binding surface 889378006355 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 889378006356 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 889378006357 active site 889378006358 Int/Topo IB signature motif; other site 889378006359 cell division protein FtsZ; Validated; Region: PRK09330 889378006360 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 889378006361 nucleotide binding site [chemical binding]; other site 889378006362 SulA interaction site; other site 889378006363 cell division protein FtsA; Region: ftsA; TIGR01174 889378006364 Cell division protein FtsA; Region: FtsA; smart00842 889378006365 Cell division protein FtsA; Region: FtsA; pfam14450 889378006366 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 889378006367 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 889378006368 cell division protein FtsW; Region: ftsW; TIGR02614 889378006369 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 889378006370 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 889378006371 Mg++ binding site [ion binding]; other site 889378006372 putative catalytic motif [active] 889378006373 putative substrate binding site [chemical binding]; other site 889378006374 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 889378006375 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 889378006376 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 889378006377 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 889378006378 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 889378006379 MraW methylase family; Region: Methyltransf_5; cl17771 889378006380 cell division protein MraZ; Reviewed; Region: PRK00326 889378006381 MraZ protein; Region: MraZ; pfam02381 889378006382 MraZ protein; Region: MraZ; pfam02381 889378006383 Uncharacterized conserved protein [Function unknown]; Region: COG1543 889378006384 N-terminal catalytic domain of alpha-amylase ( AmyC ) and similar proteins; Region: GH57N_AmyC_like; cd10792 889378006385 active site 889378006386 substrate binding site [chemical binding]; other site 889378006387 catalytic site [active] 889378006388 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 889378006389 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 889378006390 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 889378006391 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 889378006392 Walker A/P-loop; other site 889378006393 ATP binding site [chemical binding]; other site 889378006394 Q-loop/lid; other site 889378006395 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 889378006396 ABC transporter signature motif; other site 889378006397 Walker B; other site 889378006398 D-loop; other site 889378006399 H-loop/switch region; other site 889378006400 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 889378006401 ATP-NAD kinase; Region: NAD_kinase; pfam01513 889378006402 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 889378006403 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 889378006404 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 889378006405 catalytic residue [active] 889378006406 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 889378006407 putative CheA interaction surface; other site 889378006408 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 889378006409 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 889378006410 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 889378006411 ATP binding site [chemical binding]; other site 889378006412 Mg++ binding site [ion binding]; other site 889378006413 motif III; other site 889378006414 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 889378006415 nucleotide binding region [chemical binding]; other site 889378006416 ATP-binding site [chemical binding]; other site 889378006417 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 889378006418 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 889378006419 pyridoxal 5'-phosphate binding site [chemical binding]; other site 889378006420 homodimer interface [polypeptide binding]; other site 889378006421 catalytic residue [active] 889378006422 Phospholipid methyltransferase; Region: PEMT; pfam04191 889378006423 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 889378006424 nucleophile elbow; other site 889378006425 B12 binding domain; Region: B12-binding; pfam02310 889378006426 B12 binding site [chemical binding]; other site 889378006427 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 889378006428 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 889378006429 FeS/SAM binding site; other site 889378006430 adenylate kinase; Reviewed; Region: adk; PRK00279 889378006431 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 889378006432 AMP-binding site [chemical binding]; other site 889378006433 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 889378006434 TPR repeat; Region: TPR_11; pfam13414 889378006435 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 889378006436 binding surface 889378006437 TPR motif; other site 889378006438 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 889378006439 active site 889378006440 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 889378006441 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 889378006442 putative oxidoreductase; Provisional; Region: PRK11579 889378006443 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 889378006444 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 889378006445 glutamate dehydrogenase; Provisional; Region: PRK09414 889378006446 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 889378006447 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 889378006448 NAD(P) binding site [chemical binding]; other site 889378006449 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 889378006450 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 889378006451 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 889378006452 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 889378006453 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 889378006454 Walker A/P-loop; other site 889378006455 ATP binding site [chemical binding]; other site 889378006456 Q-loop/lid; other site 889378006457 ABC transporter signature motif; other site 889378006458 Walker B; other site 889378006459 D-loop; other site 889378006460 H-loop/switch region; other site 889378006461 RNHCP domain; Region: RNHCP; pfam12647 889378006462 GTPase RsgA; Reviewed; Region: PRK01889 889378006463 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 889378006464 GTPase/Zn-binding domain interface [polypeptide binding]; other site 889378006465 GTP/Mg2+ binding site [chemical binding]; other site 889378006466 G4 box; other site 889378006467 G5 box; other site 889378006468 G1 box; other site 889378006469 Switch I region; other site 889378006470 G2 box; other site 889378006471 G3 box; other site 889378006472 Switch II region; other site 889378006473 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 889378006474 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 889378006475 active site 889378006476 catalytic site [active] 889378006477 substrate binding site [chemical binding]; other site 889378006478 HRDC domain; Region: HRDC; pfam00570 889378006479 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 889378006480 dimerization interface [polypeptide binding]; other site 889378006481 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 889378006482 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 889378006483 dimer interface [polypeptide binding]; other site 889378006484 putative CheW interface [polypeptide binding]; other site 889378006485 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 889378006486 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 889378006487 metal binding site [ion binding]; metal-binding site 889378006488 active site 889378006489 I-site; other site 889378006490 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 889378006491 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 889378006492 beta-galactosidase; Region: BGL; TIGR03356 889378006493 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 889378006494 Transcriptional regulators [Transcription]; Region: MarR; COG1846 889378006495 putative DNA binding site [nucleotide binding]; other site 889378006496 putative Zn2+ binding site [ion binding]; other site 889378006497 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 889378006498 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 889378006499 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 889378006500 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 889378006501 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 889378006502 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 889378006503 SnoaL-like domain; Region: SnoaL_3; pfam13474 889378006504 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 889378006505 Histidine kinase; Region: HisKA_2; pfam07568 889378006506 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 889378006507 ATP binding site [chemical binding]; other site 889378006508 Mg2+ binding site [ion binding]; other site 889378006509 G-X-G motif; other site 889378006510 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 889378006511 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 889378006512 active site 889378006513 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 889378006514 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 889378006515 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 889378006516 binding surface 889378006517 TPR motif; other site 889378006518 Response regulator receiver domain; Region: Response_reg; pfam00072 889378006519 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 889378006520 active site 889378006521 phosphorylation site [posttranslational modification] 889378006522 intermolecular recognition site; other site 889378006523 dimerization interface [polypeptide binding]; other site 889378006524 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 889378006525 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 889378006526 putative active site [active] 889378006527 heme pocket [chemical binding]; other site 889378006528 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 889378006529 putative active site [active] 889378006530 heme pocket [chemical binding]; other site 889378006531 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 889378006532 Histidine kinase; Region: HisKA_2; pfam07568 889378006533 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 889378006534 ATP binding site [chemical binding]; other site 889378006535 Mg2+ binding site [ion binding]; other site 889378006536 G-X-G motif; other site 889378006537 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 889378006538 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 889378006539 non-specific DNA binding site [nucleotide binding]; other site 889378006540 salt bridge; other site 889378006541 sequence-specific DNA binding site [nucleotide binding]; other site 889378006542 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 889378006543 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 889378006544 active site 889378006545 Predicted amidohydrolase [General function prediction only]; Region: COG0388 889378006546 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 889378006547 active site 889378006548 catalytic triad [active] 889378006549 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; cl00246 889378006550 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 889378006551 putative homodimer interface [polypeptide binding]; other site 889378006552 putative homotetramer interface [polypeptide binding]; other site 889378006553 putative allosteric switch controlling residues; other site 889378006554 putative metal binding site [ion binding]; other site 889378006555 putative homodimer-homodimer interface [polypeptide binding]; other site 889378006556 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 889378006557 metal-binding site [ion binding] 889378006558 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 889378006559 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 889378006560 active site 889378006561 nucleophile elbow; other site 889378006562 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 889378006563 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 889378006564 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 889378006565 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 889378006566 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 889378006567 dimer interface [polypeptide binding]; other site 889378006568 putative CheW interface [polypeptide binding]; other site 889378006569 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 889378006570 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 889378006571 ATP-binding site [chemical binding]; other site 889378006572 Gluconate-6-phosphate binding site [chemical binding]; other site 889378006573 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 889378006574 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 889378006575 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 889378006576 Walker A/P-loop; other site 889378006577 ATP binding site [chemical binding]; other site 889378006578 Q-loop/lid; other site 889378006579 ABC transporter signature motif; other site 889378006580 Walker B; other site 889378006581 D-loop; other site 889378006582 H-loop/switch region; other site 889378006583 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 889378006584 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 889378006585 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 889378006586 Walker A/P-loop; other site 889378006587 ATP binding site [chemical binding]; other site 889378006588 Q-loop/lid; other site 889378006589 ABC transporter signature motif; other site 889378006590 Walker B; other site 889378006591 D-loop; other site 889378006592 H-loop/switch region; other site 889378006593 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 889378006594 TPR motif; other site 889378006595 binding surface 889378006596 Tetratricopeptide repeat; Region: TPR_12; pfam13424 889378006597 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 889378006598 TPR motif; other site 889378006599 binding surface 889378006600 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 889378006601 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 889378006602 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 889378006603 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 889378006604 arogenate dehydrogenase; Region: PLN02256 889378006605 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 889378006606 dihydrodipicolinate reductase; Provisional; Region: PRK00048 889378006607 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 889378006608 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 889378006609 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 889378006610 dihydrodipicolinate synthase; Region: dapA; TIGR00674 889378006611 dimer interface [polypeptide binding]; other site 889378006612 active site 889378006613 catalytic residue [active] 889378006614 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 889378006615 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 889378006616 Competence protein; Region: Competence; pfam03772 889378006617 Flagellar protein YcgR; Region: YcgR_2; pfam12945 889378006618 PilZ domain; Region: PilZ; pfam07238 889378006619 CAAX protease self-immunity; Region: Abi; pfam02517 889378006620 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 889378006621 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 889378006622 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 889378006623 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 889378006624 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 889378006625 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 889378006626 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 889378006627 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 889378006628 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 889378006629 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 889378006630 carboxyltransferase (CT) interaction site; other site 889378006631 biotinylation site [posttranslational modification]; other site 889378006632 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 889378006633 NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]; Region: Lig; COG0272 889378006634 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 889378006635 nucleotide binding pocket [chemical binding]; other site 889378006636 K-X-D-G motif; other site 889378006637 catalytic site [active] 889378006638 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 889378006639 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 889378006640 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; cl00038 889378006641 Sporulation related domain; Region: SPOR; pfam05036 889378006642 Transcription termination factor nusG; Region: NusG; pfam02357 889378006643 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 889378006644 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 889378006645 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 889378006646 NAD(P) binding site [chemical binding]; other site 889378006647 homodimer interface [polypeptide binding]; other site 889378006648 substrate binding site [chemical binding]; other site 889378006649 active site 889378006650 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 889378006651 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 889378006652 inhibitor-cofactor binding pocket; inhibition site 889378006653 pyridoxal 5'-phosphate binding site [chemical binding]; other site 889378006654 catalytic residue [active] 889378006655 xanthine dehydrogenase D subunit; Region: pucD; TIGR03196 889378006656 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 889378006657 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 889378006658 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 889378006659 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 889378006660 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 889378006661 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 889378006662 active site 889378006663 PHP Thumb interface [polypeptide binding]; other site 889378006664 metal binding site [ion binding]; metal-binding site 889378006665 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 889378006666 generic binding surface II; other site 889378006667 generic binding surface I; other site 889378006668 YGGT family; Region: YGGT; pfam02325 889378006669 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 889378006670 Pathogenicity locus; Region: Cdd1; pfam11731 889378006671 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 889378006672 ssDNA binding site; other site 889378006673 generic binding surface II; other site 889378006674 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 889378006675 ATP binding site [chemical binding]; other site 889378006676 putative Mg++ binding site [ion binding]; other site 889378006677 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 889378006678 nucleotide binding region [chemical binding]; other site 889378006679 ATP-binding site [chemical binding]; other site 889378006680 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 889378006681 S-adenosylmethionine binding site [chemical binding]; other site 889378006682 ATP phosphoribosyltransferase, regulatory subunit; Region: hisZ_biosyn_reg; TIGR00443 889378006683 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 889378006684 motif 1; other site 889378006685 dimer interface [polypeptide binding]; other site 889378006686 active site 889378006687 motif 2; other site 889378006688 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 889378006689 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 889378006690 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 889378006691 putative active site pocket [active] 889378006692 4-fold oligomerization interface [polypeptide binding]; other site 889378006693 metal binding residues [ion binding]; metal-binding site 889378006694 3-fold/trimer interface [polypeptide binding]; other site 889378006695 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 889378006696 binding surface 889378006697 TPR motif; other site 889378006698 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 889378006699 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 889378006700 binding surface 889378006701 TPR motif; other site 889378006702 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 889378006703 binding surface 889378006704 TPR motif; other site 889378006705 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 889378006706 binding surface 889378006707 TPR motif; other site 889378006708 Tetratricopeptide repeat; Region: TPR_16; pfam13432 889378006709 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 889378006710 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 889378006711 substrate binding pocket [chemical binding]; other site 889378006712 membrane-bound complex binding site; other site 889378006713 hinge residues; other site 889378006714 PAS domain S-box; Region: sensory_box; TIGR00229 889378006715 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 889378006716 putative active site [active] 889378006717 heme pocket [chemical binding]; other site 889378006718 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 889378006719 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 889378006720 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 889378006721 dimer interface [polypeptide binding]; other site 889378006722 phosphorylation site [posttranslational modification] 889378006723 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 889378006724 ATP binding site [chemical binding]; other site 889378006725 Mg2+ binding site [ion binding]; other site 889378006726 G-X-G motif; other site 889378006727 Response regulator receiver domain; Region: Response_reg; pfam00072 889378006728 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 889378006729 active site 889378006730 phosphorylation site [posttranslational modification] 889378006731 intermolecular recognition site; other site 889378006732 dimerization interface [polypeptide binding]; other site 889378006733 alanyl-tRNA synthetase; Provisional; Region: PRK01584 889378006734 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 889378006735 motif 1; other site 889378006736 active site 889378006737 motif 2; other site 889378006738 motif 3; other site 889378006739 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 889378006740 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 889378006741 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 889378006742 Soluble P-type ATPase [General function prediction only]; Region: COG4087 889378006743 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 889378006744 dimerization interface [polypeptide binding]; other site 889378006745 putative DNA binding site [nucleotide binding]; other site 889378006746 putative Zn2+ binding site [ion binding]; other site 889378006747 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 889378006748 Na2 binding site [ion binding]; other site 889378006749 putative substrate binding site 1 [chemical binding]; other site 889378006750 Na binding site 1 [ion binding]; other site 889378006751 putative substrate binding site 2 [chemical binding]; other site 889378006752 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 889378006753 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 889378006754 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 889378006755 DctM-like transporters; Region: DctM; pfam06808 889378006756 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 889378006757 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 889378006758 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 889378006759 pyridoxal 5'-phosphate binding site [chemical binding]; other site 889378006760 homodimer interface [polypeptide binding]; other site 889378006761 catalytic residue [active] 889378006762 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 889378006763 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 889378006764 substrate binding pocket [chemical binding]; other site 889378006765 membrane-bound complex binding site; other site 889378006766 hinge residues; other site 889378006767 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 889378006768 PAS domain; Region: PAS_9; pfam13426 889378006769 putative active site [active] 889378006770 heme pocket [chemical binding]; other site 889378006771 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 889378006772 Histidine kinase; Region: HisKA_2; pfam07568 889378006773 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 889378006774 ATP binding site [chemical binding]; other site 889378006775 Mg2+ binding site [ion binding]; other site 889378006776 G-X-G motif; other site 889378006777 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 889378006778 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 889378006779 ligand binding site [chemical binding]; other site 889378006780 flexible hinge region; other site 889378006781 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 889378006782 DNA binding site [nucleotide binding] 889378006783 sequence specific DNA binding site [nucleotide binding]; other site 889378006784 putative cAMP binding site [chemical binding]; other site 889378006785 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 889378006786 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 889378006787 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 889378006788 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 889378006789 intersubunit interface [polypeptide binding]; other site 889378006790 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 889378006791 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 889378006792 ABC-ATPase subunit interface; other site 889378006793 dimer interface [polypeptide binding]; other site 889378006794 putative PBP binding regions; other site 889378006795 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 889378006796 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 889378006797 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 889378006798 Walker A/P-loop; other site 889378006799 ATP binding site [chemical binding]; other site 889378006800 Q-loop/lid; other site 889378006801 ABC transporter signature motif; other site 889378006802 Walker B; other site 889378006803 D-loop; other site 889378006804 H-loop/switch region; other site 889378006805 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 889378006806 putative active site [active] 889378006807 putative metal binding site [ion binding]; other site 889378006808 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 889378006809 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 889378006810 dimer interface [polypeptide binding]; other site 889378006811 conserved gate region; other site 889378006812 putative PBP binding loops; other site 889378006813 ABC-ATPase subunit interface; other site 889378006814 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 889378006815 dimer interface [polypeptide binding]; other site 889378006816 conserved gate region; other site 889378006817 putative PBP binding loops; other site 889378006818 ABC-ATPase subunit interface; other site 889378006819 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 889378006820 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 889378006821 DNA binding site [nucleotide binding] 889378006822 domain linker motif; other site 889378006823 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 889378006824 dimerization interface [polypeptide binding]; other site 889378006825 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 889378006826 ligand binding site [chemical binding]; other site 889378006827 Transglycosylase; Region: Transgly; pfam00912 889378006828 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 889378006829 Surface antigen; Region: Bac_surface_Ag; pfam01103 889378006830 Family of unknown function (DUF490); Region: DUF490; pfam04357 889378006831 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 889378006832 putative active site [active] 889378006833 putative metal binding site [ion binding]; other site 889378006834 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 889378006835 Major Facilitator Superfamily; Region: MFS_1; pfam07690 889378006836 HEAT repeats; Region: HEAT_2; pfam13646 889378006837 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 889378006838 maltose O-acetyltransferase; Provisional; Region: PRK10092 889378006839 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 889378006840 active site 889378006841 substrate binding site [chemical binding]; other site 889378006842 trimer interface [polypeptide binding]; other site 889378006843 CoA binding site [chemical binding]; other site 889378006844 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 889378006845 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 889378006846 motif II; other site 889378006847 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 889378006848 MarR family; Region: MarR_2; cl17246 889378006849 Protein of unknown function (DUF1349); Region: DUF1349; pfam07081 889378006850 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 889378006851 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 889378006852 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 889378006853 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 889378006854 active site 889378006855 motif I; other site 889378006856 motif II; other site 889378006857 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 889378006858 Alpha amylase catalytic domain found in bacterial and fungal Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_fung_AmyA; cd11318 889378006859 active site 889378006860 Na/Ca binding site [ion binding]; other site 889378006861 catalytic site [active] 889378006862 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 889378006863 Domain of unknown function DUF21; Region: DUF21; pfam01595 889378006864 Transposase, Mutator family; Region: Transposase_mut; pfam00872 889378006865 MULE transposase domain; Region: MULE; pfam10551 889378006866 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 889378006867 SEC-C motif; Region: SEC-C; pfam02810 889378006868 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 889378006869 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 889378006870 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 889378006871 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 889378006872 dimer interface [polypeptide binding]; other site 889378006873 putative CheW interface [polypeptide binding]; other site 889378006874 hybrid cluster protein; Provisional; Region: PRK05290 889378006875 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; cl14655 889378006876 ACS interaction site; other site 889378006877 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 889378006878 hybrid metal cluster; other site 889378006879 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 889378006880 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 889378006881 NAD(P) binding site [chemical binding]; other site 889378006882 active site 889378006883 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 889378006884 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 889378006885 dimer interface [polypeptide binding]; other site 889378006886 active site 889378006887 CoA binding pocket [chemical binding]; other site 889378006888 3-hydroxydecanoyl-(acyl carrier protein) dehydratase; Validated; Region: PRK05174 889378006889 active site 2 [active] 889378006890 active site 1 [active] 889378006891 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 889378006892 active site 2 [active] 889378006893 active site 1 [active] 889378006894 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 889378006895 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 889378006896 dimer interface [polypeptide binding]; other site 889378006897 active site 889378006898 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 889378006899 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 889378006900 putative acyl-acceptor binding pocket; other site 889378006901 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 889378006902 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 889378006903 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 889378006904 substrate binding site [chemical binding]; other site 889378006905 THF binding site; other site 889378006906 zinc-binding site [ion binding]; other site 889378006907 Transcriptional regulator [Transcription]; Region: LysR; COG0583 889378006908 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 889378006909 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 889378006910 putative dimerization interface [polypeptide binding]; other site 889378006911 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 889378006912 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 889378006913 NAD(P) binding site [chemical binding]; other site 889378006914 LDH/MDH dimer interface [polypeptide binding]; other site 889378006915 substrate binding site [chemical binding]; other site 889378006916 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 889378006917 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 889378006918 Walker A/P-loop; other site 889378006919 ATP binding site [chemical binding]; other site 889378006920 Q-loop/lid; other site 889378006921 ABC transporter signature motif; other site 889378006922 Walker B; other site 889378006923 D-loop; other site 889378006924 H-loop/switch region; other site 889378006925 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 889378006926 Q-loop/lid; other site 889378006927 ABC transporter signature motif; other site 889378006928 Walker B; other site 889378006929 D-loop; other site 889378006930 H-loop/switch region; other site 889378006931 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; cl01943 889378006932 YKOF-related Family; Region: Ykof; pfam07615 889378006933 YKOF-related Family; Region: Ykof; pfam07615 889378006934 Protein of unknown function (DUF454); Region: DUF454; cl01063 889378006935 amino acid transporter; Region: 2A0306; TIGR00909 889378006936 cationic amino acid transport permease; Region: 2A0303; TIGR00906 889378006937 amino acid transporter; Region: 2A0306; TIGR00909 889378006938 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 889378006939 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 889378006940 catalytic triad [active] 889378006941 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 889378006942 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 889378006943 active site 889378006944 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 889378006945 S-adenosylmethionine binding site [chemical binding]; other site 889378006946 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 889378006947 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 889378006948 FeS/SAM binding site; other site 889378006949 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 889378006950 ATP cone domain; Region: ATP-cone; pfam03477 889378006951 Class III ribonucleotide reductase; Region: RNR_III; cd01675 889378006952 effector binding site; other site 889378006953 active site 889378006954 Zn binding site [ion binding]; other site 889378006955 glycine loop; other site 889378006956 Thioredoxin (TRX) superfamily; a large, diverse group of proteins containing a TRX-fold. Many members contain a classic TRX domain with a redox active CXXC motif. They function as protein disulfide oxidoreductases (PDOs), altering the redox state of...; Region: TRX_superfamily; cd01659 889378006957 PAS domain S-box; Region: sensory_box; TIGR00229 889378006958 PAS domain; Region: PAS; smart00091 889378006959 PAS domain S-box; Region: sensory_box; TIGR00229 889378006960 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 889378006961 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 889378006962 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 889378006963 dimer interface [polypeptide binding]; other site 889378006964 phosphorylation site [posttranslational modification] 889378006965 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 889378006966 ATP binding site [chemical binding]; other site 889378006967 Mg2+ binding site [ion binding]; other site 889378006968 G-X-G motif; other site 889378006969 Response regulator receiver domain; Region: Response_reg; pfam00072 889378006970 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 889378006971 active site 889378006972 phosphorylation site [posttranslational modification] 889378006973 intermolecular recognition site; other site 889378006974 dimerization interface [polypeptide binding]; other site 889378006975 Response regulator receiver domain; Region: Response_reg; pfam00072 889378006976 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 889378006977 active site 889378006978 phosphorylation site [posttranslational modification] 889378006979 intermolecular recognition site; other site 889378006980 dimerization interface [polypeptide binding]; other site 889378006981 Protein of unknown function (DUF342); Region: DUF342; pfam03961 889378006982 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 889378006983 Sulfate transporter family; Region: Sulfate_transp; pfam00916 889378006984 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 889378006985 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 889378006986 ligand binding site [chemical binding]; other site 889378006987 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 889378006988 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 889378006989 active site residue [active] 889378006990 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 889378006991 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 889378006992 FtsX-like permease family; Region: FtsX; pfam02687 889378006993 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 889378006994 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 889378006995 Walker A/P-loop; other site 889378006996 ATP binding site [chemical binding]; other site 889378006997 Q-loop/lid; other site 889378006998 ABC transporter signature motif; other site 889378006999 Walker B; other site 889378007000 D-loop; other site 889378007001 H-loop/switch region; other site 889378007002 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 889378007003 HlyD family secretion protein; Region: HlyD_3; pfam13437 889378007004 Outer membrane efflux protein; Region: OEP; pfam02321 889378007005 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 889378007006 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 889378007007 active site 889378007008 phosphorylation site [posttranslational modification] 889378007009 intermolecular recognition site; other site 889378007010 dimerization interface [polypeptide binding]; other site 889378007011 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 889378007012 DNA binding site [nucleotide binding] 889378007013 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 889378007014 dimer interface [polypeptide binding]; other site 889378007015 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 889378007016 phosphorylation site [posttranslational modification] 889378007017 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 889378007018 ATP binding site [chemical binding]; other site 889378007019 Mg2+ binding site [ion binding]; other site 889378007020 G-X-G motif; other site 889378007021 Tetratricopeptide repeat; Region: TPR_12; pfam13424 889378007022 Tetratricopeptide repeat; Region: TPR_12; pfam13424 889378007023 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 889378007024 binding surface 889378007025 TPR motif; other site 889378007026 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 889378007027 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 889378007028 metal binding site [ion binding]; metal-binding site 889378007029 active site 889378007030 I-site; other site 889378007031 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 889378007032 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 889378007033 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 889378007034 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 889378007035 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 889378007036 Multisubunit Na+/H+ antiporter, MnhC subunit [Inorganic ion transport and metabolism]; Region: MnhC; COG1006 889378007037 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 889378007038 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 889378007039 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 889378007040 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 889378007041 active site 889378007042 phosphorylation site [posttranslational modification] 889378007043 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 889378007044 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 889378007045 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 889378007046 xylose isomerase; Provisional; Region: PRK05474 889378007047 xylose isomerase; Region: xylose_isom_A; TIGR02630 889378007048 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 889378007049 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 889378007050 nucleotide binding site [chemical binding]; other site 889378007051 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 889378007052 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 889378007053 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 889378007054 Mechanosensitive ion channel; Region: MS_channel; pfam00924 889378007055 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 889378007056 Family description; Region: UvrD_C_2; pfam13538 889378007057 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 889378007058 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 889378007059 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 889378007060 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 889378007061 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 889378007062 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 889378007063 Cna protein B-type domain; Region: Cna_B_2; pfam13715 889378007064 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 889378007065 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 889378007066 Transcriptional regulator [Transcription]; Region: LysR; COG0583 889378007067 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 889378007068 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 889378007069 dimerization interface [polypeptide binding]; other site 889378007070 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 889378007071 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 889378007072 substrate binding site [chemical binding]; other site 889378007073 ligand binding site [chemical binding]; other site 889378007074 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 889378007075 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 889378007076 substrate binding site [chemical binding]; other site 889378007077 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 889378007078 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 889378007079 nucleophile elbow; other site 889378007080 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 889378007081 trehalose synthase; Region: treS_nterm; TIGR02456 889378007082 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 889378007083 active site 889378007084 catalytic site [active] 889378007085 Domon-like ligand-binding domains; Region: DOMON_like; cl14783 889378007086 putative ligand binding site [chemical binding]; other site 889378007087 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cl04227 889378007088 carbohydrate binding site [chemical binding]; other site 889378007089 pullulanase, type I; Region: pulA_typeI; TIGR02104 889378007090 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 889378007091 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 889378007092 Ca binding site [ion binding]; other site 889378007093 active site 889378007094 catalytic site [active] 889378007095 trehalose synthase; Region: treS_nterm; TIGR02456 889378007096 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac2_AmyA; cd11316 889378007097 Ca binding site [ion binding]; other site 889378007098 active site 889378007099 catalytic site [active] 889378007100 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 889378007101 active site 889378007102 oxyanion hole [active] 889378007103 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 889378007104 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 889378007105 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 889378007106 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 889378007107 active site 889378007108 catalytic site [active] 889378007109 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 889378007110 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 889378007111 active site 889378007112 catalytic site [active] 889378007113 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 889378007114 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 889378007115 glycogen binding site [chemical binding]; other site 889378007116 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 889378007117 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 889378007118 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 889378007119 Walker A/P-loop; other site 889378007120 ATP binding site [chemical binding]; other site 889378007121 Q-loop/lid; other site 889378007122 ABC transporter signature motif; other site 889378007123 Walker B; other site 889378007124 D-loop; other site 889378007125 H-loop/switch region; other site 889378007126 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 889378007127 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 889378007128 dimer interface [polypeptide binding]; other site 889378007129 conserved gate region; other site 889378007130 putative PBP binding loops; other site 889378007131 ABC-ATPase subunit interface; other site 889378007132 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 889378007133 putative PBP binding loops; other site 889378007134 ABC-ATPase subunit interface; other site 889378007135 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 889378007136 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 889378007137 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 889378007138 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 889378007139 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 889378007140 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; cl17736 889378007141 active site 889378007142 phosphorylation site [posttranslational modification] 889378007143 intermolecular recognition site; other site 889378007144 dimerization interface [polypeptide binding]; other site 889378007145 Response regulator receiver domain; Region: Response_reg; pfam00072 889378007146 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 889378007147 active site 889378007148 phosphorylation site [posttranslational modification] 889378007149 intermolecular recognition site; other site 889378007150 dimerization interface [polypeptide binding]; other site 889378007151 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 889378007152 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 889378007153 dimer interface [polypeptide binding]; other site 889378007154 phosphorylation site [posttranslational modification] 889378007155 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 889378007156 ATP binding site [chemical binding]; other site 889378007157 Mg2+ binding site [ion binding]; other site 889378007158 G-X-G motif; other site 889378007159 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 889378007160 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 889378007161 pyridoxal 5'-phosphate binding site [chemical binding]; other site 889378007162 catalytic residue [active] 889378007163 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 889378007164 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 889378007165 ABC-ATPase subunit interface; other site 889378007166 dimer interface [polypeptide binding]; other site 889378007167 putative PBP binding regions; other site 889378007168 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 889378007169 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 889378007170 Walker A/P-loop; other site 889378007171 ATP binding site [chemical binding]; other site 889378007172 Q-loop/lid; other site 889378007173 ABC transporter signature motif; other site 889378007174 Walker B; other site 889378007175 D-loop; other site 889378007176 H-loop/switch region; other site 889378007177 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 889378007178 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 889378007179 intersubunit interface [polypeptide binding]; other site 889378007180 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 889378007181 Protein of unknown function (DUF456); Region: DUF456; pfam04306 889378007182 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 889378007183 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 889378007184 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 889378007185 dimer interface [polypeptide binding]; other site 889378007186 phosphorylation site [posttranslational modification] 889378007187 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 889378007188 ATP binding site [chemical binding]; other site 889378007189 Mg2+ binding site [ion binding]; other site 889378007190 G-X-G motif; other site 889378007191 Response regulator receiver domain; Region: Response_reg; pfam00072 889378007192 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 889378007193 active site 889378007194 phosphorylation site [posttranslational modification] 889378007195 intermolecular recognition site; other site 889378007196 dimerization interface [polypeptide binding]; other site 889378007197 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 889378007198 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 889378007199 putative binding surface; other site 889378007200 active site 889378007201 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 889378007202 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 889378007203 ATP binding site [chemical binding]; other site 889378007204 Mg2+ binding site [ion binding]; other site 889378007205 G-X-G motif; other site 889378007206 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 889378007207 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 889378007208 anti sigma factor interaction site; other site 889378007209 regulatory phosphorylation site [posttranslational modification]; other site 889378007210 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 889378007211 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 889378007212 active site 889378007213 phosphorylation site [posttranslational modification] 889378007214 intermolecular recognition site; other site 889378007215 dimerization interface [polypeptide binding]; other site 889378007216 Response regulator receiver domain; Region: Response_reg; pfam00072 889378007217 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 889378007218 active site 889378007219 phosphorylation site [posttranslational modification] 889378007220 intermolecular recognition site; other site 889378007221 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 889378007222 dimerization interface [polypeptide binding]; other site 889378007223 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 889378007224 ATP binding site [chemical binding]; other site 889378007225 Mg2+ binding site [ion binding]; other site 889378007226 G-X-G motif; other site 889378007227 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 889378007228 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 889378007229 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 889378007230 dimerization interface [polypeptide binding]; other site 889378007231 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 889378007232 dimer interface [polypeptide binding]; other site 889378007233 putative CheW interface [polypeptide binding]; other site 889378007234 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 889378007235 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 889378007236 Coenzyme A binding pocket [chemical binding]; other site 889378007237 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 889378007238 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 889378007239 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 889378007240 Walker A/P-loop; other site 889378007241 ATP binding site [chemical binding]; other site 889378007242 Q-loop/lid; other site 889378007243 ABC transporter signature motif; other site 889378007244 Walker B; other site 889378007245 D-loop; other site 889378007246 H-loop/switch region; other site 889378007247 ABC-2 type transporter; Region: ABC2_membrane; cl17235 889378007248 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 889378007249 Response regulator receiver domain; Region: Response_reg; pfam00072 889378007250 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 889378007251 active site 889378007252 phosphorylation site [posttranslational modification] 889378007253 intermolecular recognition site; other site 889378007254 dimerization interface [polypeptide binding]; other site 889378007255 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 889378007256 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 889378007257 metal binding site [ion binding]; metal-binding site 889378007258 active site 889378007259 I-site; other site 889378007260 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 889378007261 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 889378007262 dimer interface [polypeptide binding]; other site 889378007263 phosphorylation site [posttranslational modification] 889378007264 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 889378007265 ATP binding site [chemical binding]; other site 889378007266 Mg2+ binding site [ion binding]; other site 889378007267 G-X-G motif; other site 889378007268 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 889378007269 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 889378007270 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 889378007271 short chain dehydrogenase; Provisional; Region: PRK07023 889378007272 NAD(P) binding site [chemical binding]; other site 889378007273 active site 889378007274 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 889378007275 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 889378007276 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 889378007277 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 889378007278 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 889378007279 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 889378007280 NAD(P) binding site [chemical binding]; other site 889378007281 active site 889378007282 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 889378007283 galactokinase; Region: gal_kin; TIGR00131 889378007284 PAC2 family; Region: PAC2; cl00847 889378007285 Transcriptional regulators [Transcription]; Region: PurR; COG1609 889378007286 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 889378007287 DNA binding site [nucleotide binding] 889378007288 domain linker motif; other site 889378007289 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 889378007290 ligand binding site [chemical binding]; other site 889378007291 2-isopropylmalate synthase; Validated; Region: PRK03739 889378007292 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 889378007293 active site 889378007294 catalytic residues [active] 889378007295 metal binding site [ion binding]; metal-binding site 889378007296 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 889378007297 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 889378007298 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 889378007299 active site 889378007300 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 889378007301 FOG: CBS domain [General function prediction only]; Region: COG0517 889378007302 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 889378007303 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 889378007304 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; cl00075 889378007305 ATP binding site [chemical binding]; other site 889378007306 G-X-G motif; other site 889378007307 DRTGG domain; Region: DRTGG; pfam07085 889378007308 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; cl17432 889378007309 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 889378007310 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 889378007311 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 889378007312 ABC-ATPase subunit interface; other site 889378007313 putative PBP binding loops; other site 889378007314 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 889378007315 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 889378007316 Walker A/P-loop; other site 889378007317 ATP binding site [chemical binding]; other site 889378007318 Q-loop/lid; other site 889378007319 ABC transporter signature motif; other site 889378007320 Walker B; other site 889378007321 D-loop; other site 889378007322 H-loop/switch region; other site 889378007323 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 889378007324 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 889378007325 putative dimer interface [polypeptide binding]; other site 889378007326 [2Fe-2S] cluster binding site [ion binding]; other site 889378007327 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 889378007328 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 889378007329 ATP binding site [chemical binding]; other site 889378007330 Mg2+ binding site [ion binding]; other site 889378007331 G-X-G motif; other site 889378007332 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 889378007333 dimer interface [polypeptide binding]; other site 889378007334 [2Fe-2S] cluster binding site [ion binding]; other site 889378007335 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 889378007336 dimer interface [polypeptide binding]; other site 889378007337 [2Fe-2S] cluster binding site [ion binding]; other site 889378007338 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 889378007339 SLBB domain; Region: SLBB; pfam10531 889378007340 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 889378007341 4Fe-4S binding domain; Region: Fer4; pfam00037 889378007342 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 889378007343 4Fe-4S binding domain; Region: Fer4; pfam00037 889378007344 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 889378007345 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 889378007346 catalytic loop [active] 889378007347 iron binding site [ion binding]; other site 889378007348 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 889378007349 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 889378007350 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; cl14655 889378007351 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 889378007352 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 889378007353 META domain; Region: META; pfam03724 889378007354 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 889378007355 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 889378007356 active site 889378007357 catalytic tetrad [active] 889378007358 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 889378007359 synthetase active site [active] 889378007360 NTP binding site [chemical binding]; other site 889378007361 metal binding site [ion binding]; metal-binding site 889378007362 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 889378007363 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 889378007364 Zn2+ binding site [ion binding]; other site 889378007365 Mg2+ binding site [ion binding]; other site 889378007366 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 889378007367 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 889378007368 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 889378007369 motif II; other site 889378007370 ATP cone domain; Region: ATP-cone; pfam03477 889378007371 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 889378007372 ribonucleoside-triphosphate reductase, adenosylcobalamin-dependent; Region: RTPR; TIGR02505 889378007373 Transcriptional regulators [Transcription]; Region: PurR; COG1609 889378007374 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 889378007375 DNA binding site [nucleotide binding] 889378007376 domain linker motif; other site 889378007377 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 889378007378 ligand binding site [chemical binding]; other site 889378007379 dimerization interface [polypeptide binding]; other site 889378007380 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 889378007381 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 889378007382 FeS/SAM binding site; other site 889378007383 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 889378007384 Pyruvate formate lyase 1; Region: PFL1; cd01678 889378007385 coenzyme A binding site [chemical binding]; other site 889378007386 active site 889378007387 catalytic residues [active] 889378007388 glycine loop; other site 889378007389 Fructosamine kinase; Region: Fructosamin_kin; cl17579 889378007390 Phosphotransferase enzyme family; Region: APH; pfam01636 889378007391 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 889378007392 Low molecular weight phosphatase family; Region: LMWPc; cd00115 889378007393 active site 889378007394 Response regulator receiver domain; Region: Response_reg; pfam00072 889378007395 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 889378007396 active site 889378007397 phosphorylation site [posttranslational modification] 889378007398 intermolecular recognition site; other site 889378007399 dimerization interface [polypeptide binding]; other site 889378007400 cytidylate kinase; Provisional; Region: PRK04182 889378007401 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 889378007402 CMP-binding site; other site 889378007403 The sites determining sugar specificity; other site 889378007404 hypothetical protein; Provisional; Region: PRK11820 889378007405 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 889378007406 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 889378007407 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 889378007408 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 889378007409 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 889378007410 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 889378007411 Domain of unknown function (DUF368); Region: DUF368; pfam04018 889378007412 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 889378007413 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 889378007414 FeS/SAM binding site; other site 889378007415 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 889378007416 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 889378007417 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 889378007418 putative acyl-acceptor binding pocket; other site 889378007419 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; cl01054 889378007420 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 889378007421 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 889378007422 dimer interface [polypeptide binding]; other site 889378007423 putative CheW interface [polypeptide binding]; other site 889378007424 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 889378007425 dimerization interface [polypeptide binding]; other site 889378007426 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 889378007427 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 889378007428 dimer interface [polypeptide binding]; other site 889378007429 putative CheW interface [polypeptide binding]; other site 889378007430 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 889378007431 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK06830 889378007432 6-phosphofructokinase; Region: PLN02884 889378007433 active site 889378007434 ADP/pyrophosphate binding site [chemical binding]; other site 889378007435 dimerization interface [polypeptide binding]; other site 889378007436 allosteric effector site; other site 889378007437 fructose-1,6-bisphosphate binding site; other site 889378007438 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 889378007439 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 889378007440 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 889378007441 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 889378007442 SurA N-terminal domain; Region: SurA_N_3; cl07813 889378007443 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 889378007444 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 889378007445 Walker A/P-loop; other site 889378007446 ATP binding site [chemical binding]; other site 889378007447 Q-loop/lid; other site 889378007448 ABC transporter signature motif; other site 889378007449 Walker B; other site 889378007450 D-loop; other site 889378007451 H-loop/switch region; other site 889378007452 TOBE-like domain; Region: TOBE_3; pfam12857 889378007453 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 889378007454 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 889378007455 dimer interface [polypeptide binding]; other site 889378007456 conserved gate region; other site 889378007457 putative PBP binding loops; other site 889378007458 ABC-ATPase subunit interface; other site 889378007459 sulfate transport protein; Provisional; Region: cysT; CHL00187 889378007460 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 889378007461 dimer interface [polypeptide binding]; other site 889378007462 conserved gate region; other site 889378007463 putative PBP binding loops; other site 889378007464 ABC-ATPase subunit interface; other site 889378007465 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 889378007466 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 889378007467 Bacterial SH3 domain; Region: SH3_3; pfam08239 889378007468 Peptidase family M48; Region: Peptidase_M48; pfam01435 889378007469 CHASE2 domain; Region: CHASE2; pfam05226 889378007470 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 889378007471 cyclase homology domain; Region: CHD; cd07302 889378007472 nucleotidyl binding site; other site 889378007473 metal binding site [ion binding]; metal-binding site 889378007474 dimer interface [polypeptide binding]; other site 889378007475 Uncharacterized conserved protein (DUF2196); Region: DUF2196; pfam09962 889378007476 cysteine synthase B; Region: cysM; TIGR01138 889378007477 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 889378007478 dimer interface [polypeptide binding]; other site 889378007479 pyridoxal 5'-phosphate binding site [chemical binding]; other site 889378007480 catalytic residue [active] 889378007481 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 889378007482 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 889378007483 homodimer interface [polypeptide binding]; other site 889378007484 substrate-cofactor binding pocket; other site 889378007485 pyridoxal 5'-phosphate binding site [chemical binding]; other site 889378007486 catalytic residue [active] 889378007487 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 889378007488 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 889378007489 putative catalytic cysteine [active] 889378007490 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 889378007491 putative active site [active] 889378007492 metal binding site [ion binding]; metal-binding site 889378007493 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 889378007494 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 889378007495 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 889378007496 HflX GTPase family; Region: HflX; cd01878 889378007497 G1 box; other site 889378007498 GTP/Mg2+ binding site [chemical binding]; other site 889378007499 Switch I region; other site 889378007500 G2 box; other site 889378007501 G3 box; other site 889378007502 Switch II region; other site 889378007503 G4 box; other site 889378007504 G5 box; other site 889378007505 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 889378007506 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 889378007507 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 889378007508 DNA binding site [nucleotide binding] 889378007509 active site 889378007510 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 889378007511 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 889378007512 pyridoxal 5'-phosphate binding site [chemical binding]; other site 889378007513 homodimer interface [polypeptide binding]; other site 889378007514 catalytic residue [active] 889378007515 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 889378007516 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 889378007517 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 889378007518 Walker A/P-loop; other site 889378007519 ATP binding site [chemical binding]; other site 889378007520 Q-loop/lid; other site 889378007521 ABC transporter signature motif; other site 889378007522 Walker B; other site 889378007523 D-loop; other site 889378007524 H-loop/switch region; other site 889378007525 TOBE domain; Region: TOBE_2; pfam08402 889378007526 FecR protein; Region: FecR; pfam04773 889378007527 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 889378007528 homoserine dehydrogenase; Provisional; Region: PRK06349 889378007529 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 889378007530 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 889378007531 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 889378007532 Protein of unknown function (DUF554); Region: DUF554; pfam04474 889378007533 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 889378007534 dimerization interface [polypeptide binding]; other site 889378007535 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 889378007536 Histidine kinase; Region: HisKA_2; pfam07568 889378007537 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 889378007538 ATP binding site [chemical binding]; other site 889378007539 Mg2+ binding site [ion binding]; other site 889378007540 G-X-G motif; other site 889378007541 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 889378007542 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 889378007543 ligand binding site [chemical binding]; other site 889378007544 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 889378007545 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 889378007546 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 889378007547 FAD binding pocket [chemical binding]; other site 889378007548 FAD binding motif [chemical binding]; other site 889378007549 phosphate binding motif [ion binding]; other site 889378007550 beta-alpha-beta structure motif; other site 889378007551 NAD binding pocket [chemical binding]; other site 889378007552 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 889378007553 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 889378007554 active site 889378007555 Tocopherol cyclase; Region: Tocopherol_cycl; cl14571 889378007556 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 889378007557 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 889378007558 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 889378007559 substrate binding site [chemical binding]; other site 889378007560 glutamase interaction surface [polypeptide binding]; other site 889378007561 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 889378007562 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 889378007563 putative active site [active] 889378007564 oxyanion strand; other site 889378007565 catalytic triad [active] 889378007566 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 889378007567 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 889378007568 HIGH motif; other site 889378007569 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 889378007570 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 889378007571 active site 889378007572 KMSKS motif; other site 889378007573 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 889378007574 tRNA binding surface [nucleotide binding]; other site 889378007575 anticodon binding site; other site 889378007576 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 889378007577 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 889378007578 active site 889378007579 HIGH motif; other site 889378007580 nucleotide binding site [chemical binding]; other site 889378007581 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 889378007582 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 889378007583 active site 889378007584 KMSKS motif; other site 889378007585 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 889378007586 tRNA binding surface [nucleotide binding]; other site 889378007587 anticodon binding site; other site 889378007588 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 889378007589 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 889378007590 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 889378007591 Ca binding site [ion binding]; other site 889378007592 active site 889378007593 catalytic site [active] 889378007594 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 889378007595 Methyltransferase domain; Region: Methyltransf_23; pfam13489 889378007596 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 889378007597 S-adenosylmethionine binding site [chemical binding]; other site 889378007598 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 889378007599 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 889378007600 ligand binding site [chemical binding]; other site 889378007601 flexible hinge region; other site 889378007602 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 889378007603 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 889378007604 ligand binding site [chemical binding]; other site 889378007605 flexible hinge region; other site 889378007606 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 889378007607 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 889378007608 dimer interface [polypeptide binding]; other site 889378007609 active site 889378007610 glycine-pyridoxal phosphate binding site [chemical binding]; other site 889378007611 folate binding site [chemical binding]; other site 889378007612 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 889378007613 dimer interface [polypeptide binding]; other site 889378007614 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 889378007615 putative CheW interface [polypeptide binding]; other site 889378007616 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 889378007617 IPT/TIG domain; Region: TIG; pfam01833 889378007618 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 889378007619 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 889378007620 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 889378007621 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 889378007622 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 889378007623 DNA binding residues [nucleotide binding] 889378007624 UDP-N-acetylmuramate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: MurB; COG0812 889378007625 FAD binding domain; Region: FAD_binding_4; pfam01565 889378007626 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 889378007627 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 889378007628 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 889378007629 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 889378007630 Transcriptional regulators [Transcription]; Region: PurR; COG1609 889378007631 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 889378007632 DNA binding site [nucleotide binding] 889378007633 domain linker motif; other site 889378007634 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 889378007635 dimerization interface [polypeptide binding]; other site 889378007636 ligand binding site [chemical binding]; other site 889378007637 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 889378007638 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 889378007639 putative PBP binding loops; other site 889378007640 dimer interface [polypeptide binding]; other site 889378007641 ABC-ATPase subunit interface; other site 889378007642 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 889378007643 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 889378007644 putative PBP binding loops; other site 889378007645 ABC-ATPase subunit interface; other site 889378007646 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 889378007647 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 889378007648 propionate/acetate kinase; Provisional; Region: PRK12379 889378007649 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 889378007650 nucleotide binding site [chemical binding]; other site 889378007651 butyrate kinase; Provisional; Region: PRK03011 889378007652 DJ-1 family protein; Region: not_thiJ; TIGR01383 889378007653 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 889378007654 conserved cys residue [active] 889378007655 Mechanosensitive ion channel; Region: MS_channel; pfam00924 889378007656 AAA domain; Region: AAA_31; pfam13614 889378007657 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 889378007658 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 889378007659 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 889378007660 TPP-binding site [chemical binding]; other site 889378007661 tetramer interface [polypeptide binding]; other site 889378007662 heterodimer interface [polypeptide binding]; other site 889378007663 phosphorylation loop region [posttranslational modification] 889378007664 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 889378007665 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 889378007666 PYR/PP interface [polypeptide binding]; other site 889378007667 dimer interface [polypeptide binding]; other site 889378007668 TPP binding site [chemical binding]; other site 889378007669 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 889378007670 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 889378007671 E3 interaction surface; other site 889378007672 lipoyl attachment site [posttranslational modification]; other site 889378007673 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 889378007674 dimer interface [polypeptide binding]; other site 889378007675 active site 889378007676 CoA binding pocket [chemical binding]; other site 889378007677 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 889378007678 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 889378007679 putative acyl-acceptor binding pocket; other site 889378007680 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 889378007681 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; cl01974 889378007682 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 889378007683 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 889378007684 active site 889378007685 catalytic site [active] 889378007686 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 889378007687 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 889378007688 DNA binding residues [nucleotide binding] 889378007689 dimerization interface [polypeptide binding]; other site 889378007690 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 889378007691 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 889378007692 PLD-like domain; Region: PLDc_2; pfam13091 889378007693 putative active site [active] 889378007694 catalytic site [active] 889378007695 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 889378007696 PLD-like domain; Region: PLDc_2; pfam13091 889378007697 putative active site [active] 889378007698 catalytic site [active] 889378007699 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 889378007700 putative acyl-acceptor binding pocket; other site 889378007701 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 889378007702 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 889378007703 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 889378007704 dimer interface [polypeptide binding]; other site 889378007705 conserved gate region; other site 889378007706 ABC-ATPase subunit interface; other site 889378007707 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 889378007708 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 889378007709 dimer interface [polypeptide binding]; other site 889378007710 conserved gate region; other site 889378007711 putative PBP binding loops; other site 889378007712 ABC-ATPase subunit interface; other site 889378007713 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 889378007714 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 889378007715 Coenzyme A binding pocket [chemical binding]; other site 889378007716 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 889378007717 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 889378007718 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 889378007719 ABC transporter; Region: ABC_tran_2; pfam12848 889378007720 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 889378007721 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 889378007722 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 889378007723 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 889378007724 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 889378007725 active site 889378007726 catalytic site [active] 889378007727 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 889378007728 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 889378007729 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 889378007730 active site 889378007731 catalytic site [active] 889378007732 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 889378007733 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 889378007734 active site 889378007735 catalytic site [active] 889378007736 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 889378007737 The family 20 carbohydrate-binding module (CBM20), also known as the starch-binding domain, is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is...; Region: CBM20; cl15347 889378007738 starch-binding site 2 [chemical binding]; other site 889378007739 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 889378007740 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 889378007741 Coenzyme A binding pocket [chemical binding]; other site 889378007742 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 889378007743 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 889378007744 metal binding site [ion binding]; metal-binding site 889378007745 dimer interface [polypeptide binding]; other site 889378007746 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 889378007747 YceG-like family; Region: YceG; pfam02618 889378007748 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 889378007749 dimerization interface [polypeptide binding]; other site 889378007750 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 889378007751 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 889378007752 rRNA binding site [nucleotide binding]; other site 889378007753 predicted 30S ribosome binding site; other site 889378007754 Smr domain; Region: Smr; pfam01713 889378007755 Oxygen tolerance; Region: BatD; pfam13584 889378007756 Tetratricopeptide repeat; Region: TPR_16; pfam13432 889378007757 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 889378007758 TPR repeat; Region: TPR_11; pfam13414 889378007759 TPR motif; other site 889378007760 binding surface 889378007761 TPR repeat; Region: TPR_11; pfam13414 889378007762 von Willebrand factor type A domain; Region: VWA_2; pfam13519 889378007763 metal ion-dependent adhesion site (MIDAS); other site 889378007764 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 889378007765 metal ion-dependent adhesion site (MIDAS); other site 889378007766 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 889378007767 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 889378007768 metal ion-dependent adhesion site (MIDAS); other site 889378007769 MoxR-like ATPases [General function prediction only]; Region: COG0714 889378007770 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 889378007771 Walker A motif; other site 889378007772 ATP binding site [chemical binding]; other site 889378007773 Walker B motif; other site 889378007774 arginine finger; other site 889378007775 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 889378007776 heterotetramer interface [polypeptide binding]; other site 889378007777 active site pocket [active] 889378007778 cleavage site 889378007779 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 889378007780 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 889378007781 binding surface 889378007782 Tetratricopeptide repeat; Region: TPR_16; pfam13432 889378007783 TPR motif; other site 889378007784 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 889378007785 metal ion-dependent adhesion site (MIDAS); other site 889378007786 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 889378007787 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 889378007788 glutaminase active site [active] 889378007789 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 889378007790 dimer interface [polypeptide binding]; other site 889378007791 active site 889378007792 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 889378007793 dimer interface [polypeptide binding]; other site 889378007794 active site 889378007795 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 889378007796 catalytic residues [active] 889378007797 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 889378007798 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 889378007799 NAD(P) binding site [chemical binding]; other site 889378007800 catalytic residues [active] 889378007801 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 889378007802 substrate binding site [chemical binding]; other site 889378007803 active site 889378007804 catalytic residues [active] 889378007805 heterodimer interface [polypeptide binding]; other site 889378007806 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 889378007807 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 889378007808 pyridoxal 5'-phosphate binding site [chemical binding]; other site 889378007809 catalytic residue [active] 889378007810 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 889378007811 active site 889378007812 ribulose/triose binding site [chemical binding]; other site 889378007813 phosphate binding site [ion binding]; other site 889378007814 substrate (anthranilate) binding pocket [chemical binding]; other site 889378007815 product (indole) binding pocket [chemical binding]; other site 889378007816 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 889378007817 active site 889378007818 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional; Region: PRK14607 889378007819 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 889378007820 glutamine binding [chemical binding]; other site 889378007821 catalytic triad [active] 889378007822 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 889378007823 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 889378007824 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 889378007825 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 889378007826 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 889378007827 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 889378007828 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 889378007829 dimer interface [polypeptide binding]; other site 889378007830 ssDNA binding site [nucleotide binding]; other site 889378007831 tetramer (dimer of dimers) interface [polypeptide binding]; other site 889378007832 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 889378007833 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 889378007834 active site 889378007835 interdomain interaction site; other site 889378007836 putative metal-binding site [ion binding]; other site 889378007837 nucleotide binding site [chemical binding]; other site 889378007838 Bacterial DNA topoisomeraes I ATP-binding domain; Region: TOP1Bc; smart00436 889378007839 domain I; other site 889378007840 phosphate binding site [ion binding]; other site 889378007841 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 889378007842 domain II; other site 889378007843 domain III; other site 889378007844 nucleotide binding site [chemical binding]; other site 889378007845 DNA binding groove [nucleotide binding] 889378007846 catalytic site [active] 889378007847 domain IV; other site 889378007848 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 889378007849 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 889378007850 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 889378007851 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 889378007852 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 889378007853 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 889378007854 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 889378007855 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 889378007856 Walker A/P-loop; other site 889378007857 ATP binding site [chemical binding]; other site 889378007858 Q-loop/lid; other site 889378007859 ABC transporter signature motif; other site 889378007860 Walker B; other site 889378007861 D-loop; other site 889378007862 H-loop/switch region; other site 889378007863 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 889378007864 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 889378007865 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 889378007866 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 889378007867 Peptidase M16C associated; Region: M16C_assoc; pfam08367 889378007868 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 889378007869 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 889378007870 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 889378007871 pyridoxal 5'-phosphate binding site [chemical binding]; other site 889378007872 homodimer interface [polypeptide binding]; other site 889378007873 catalytic residue [active] 889378007874 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 889378007875 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 889378007876 motif 1; other site 889378007877 dimer interface [polypeptide binding]; other site 889378007878 active site 889378007879 motif 2; other site 889378007880 motif 3; other site 889378007881 elongation factor P; Validated; Region: PRK00529 889378007882 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 889378007883 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 889378007884 RNA binding site [nucleotide binding]; other site 889378007885 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 889378007886 RNA binding site [nucleotide binding]; other site 889378007887 Predicted transcriptional regulator [Transcription]; Region: COG1959 889378007888 Transcriptional regulator; Region: Rrf2; cl17282 889378007889 Mechanosensitive ion channel; Region: MS_channel; pfam00924 889378007890 bifunctional orotidine 5'-phosphate decarboxylase/orotate phosphoribosyltransferase protein; Validated; Region: PRK05500 889378007891 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 889378007892 active site 889378007893 dimer interface [polypeptide binding]; other site 889378007894 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 889378007895 active site 889378007896 NAD-dependent deacetylase; Provisional; Region: PRK00481 889378007897 SIR2 family 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-fam; cd01407 889378007898 NAD+ binding site [chemical binding]; other site 889378007899 substrate binding site [chemical binding]; other site 889378007900 Zn binding site [ion binding]; other site 889378007901 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 889378007902 active site 889378007903 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 889378007904 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 889378007905 dimer interface [polypeptide binding]; other site 889378007906 conserved gate region; other site 889378007907 putative PBP binding loops; other site 889378007908 ABC-ATPase subunit interface; other site 889378007909 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 889378007910 putative PBP binding loops; other site 889378007911 dimer interface [polypeptide binding]; other site 889378007912 ABC-ATPase subunit interface; other site 889378007913 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 889378007914 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 889378007915 FtsH Extracellular; Region: FtsH_ext; pfam06480 889378007916 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 889378007917 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 889378007918 Walker A motif; other site 889378007919 ATP binding site [chemical binding]; other site 889378007920 Walker B motif; other site 889378007921 arginine finger; other site 889378007922 Peptidase family M41; Region: Peptidase_M41; pfam01434 889378007923 Predicted esterase [General function prediction only]; Region: COG0400 889378007924 Chromate transporter; Region: Chromate_transp; pfam02417 889378007925 Chromate transporter; Region: Chromate_transp; pfam02417 889378007926 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 889378007927 MgtE intracellular N domain; Region: MgtE_N; pfam03448 889378007928 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 889378007929 Divalent cation transporter; Region: MgtE; pfam01769 889378007930 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 889378007931 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 889378007932 dimerization interface [polypeptide binding]; other site 889378007933 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 889378007934 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 889378007935 dimer interface [polypeptide binding]; other site 889378007936 putative CheW interface [polypeptide binding]; other site 889378007937 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 889378007938 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 889378007939 Ca binding site [ion binding]; other site 889378007940 active site 889378007941 catalytic site [active] 889378007942 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_9; cd13135 889378007943 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 889378007944 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 889378007945 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 889378007946 Outer membrane efflux protein; Region: OEP; pfam02321 889378007947 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 889378007948 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 889378007949 HlyD family secretion protein; Region: HlyD_3; pfam13437 889378007950 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 889378007951 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 889378007952 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 889378007953 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 889378007954 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 889378007955 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 889378007956 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 889378007957 putative acyltransferase; Provisional; Region: PRK05790 889378007958 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 889378007959 dimer interface [polypeptide binding]; other site 889378007960 active site 889378007961 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 889378007962 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 889378007963 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 889378007964 E3 interaction surface; other site 889378007965 lipoyl attachment site [posttranslational modification]; other site 889378007966 HlyD family secretion protein; Region: HlyD_3; pfam13437 889378007967 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 889378007968 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 889378007969 active site 889378007970 motif I; other site 889378007971 motif II; other site 889378007972 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 889378007973 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 889378007974 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 889378007975 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 889378007976 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 889378007977 active site 889378007978 Zn binding site [ion binding]; other site 889378007979 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 889378007980 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 889378007981 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 889378007982 active site 889378007983 dimer interface [polypeptide binding]; other site 889378007984 motif 1; other site 889378007985 motif 2; other site 889378007986 motif 3; other site 889378007987 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 889378007988 anticodon binding site; other site 889378007989 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 889378007990 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 889378007991 Coenzyme A binding pocket [chemical binding]; other site 889378007992 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 889378007993 Walker A/P-loop; other site 889378007994 ATP binding site [chemical binding]; other site 889378007995 Q-loop/lid; other site 889378007996 ABC transporter signature motif; other site 889378007997 Walker B; other site 889378007998 D-loop; other site 889378007999 H-loop/switch region; other site 889378008000 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 889378008001 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 889378008002 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 889378008003 active site 889378008004 catalytic site [active] 889378008005 acyl-CoA esterase; Provisional; Region: PRK10673 889378008006 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 889378008007 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 889378008008 catalytic site [active] 889378008009 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 889378008010 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 889378008011 non-specific DNA binding site [nucleotide binding]; other site 889378008012 salt bridge; other site 889378008013 sequence-specific DNA binding site [nucleotide binding]; other site 889378008014 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 889378008015 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 889378008016 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 889378008017 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 889378008018 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 889378008019 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 889378008020 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 889378008021 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 889378008022 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 889378008023 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 889378008024 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 889378008025 Walker A/P-loop; other site 889378008026 ATP binding site [chemical binding]; other site 889378008027 Q-loop/lid; other site 889378008028 ABC transporter signature motif; other site 889378008029 Walker B; other site 889378008030 D-loop; other site 889378008031 H-loop/switch region; other site 889378008032 TOBE domain; Region: TOBE_2; pfam08402 889378008033 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 889378008034 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 889378008035 dimer interface [polypeptide binding]; other site 889378008036 conserved gate region; other site 889378008037 putative PBP binding loops; other site 889378008038 ABC-ATPase subunit interface; other site 889378008039 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 889378008040 dimer interface [polypeptide binding]; other site 889378008041 conserved gate region; other site 889378008042 putative PBP binding loops; other site 889378008043 ABC-ATPase subunit interface; other site 889378008044 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 889378008045 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 889378008046 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 889378008047 cyclase homology domain; Region: CHD; cd07302 889378008048 nucleotidyl binding site; other site 889378008049 metal binding site [ion binding]; metal-binding site 889378008050 dimer interface [polypeptide binding]; other site 889378008051 2TM domain; Region: 2TM; pfam13239 889378008052 2TM domain; Region: 2TM; pfam13239 889378008053 DNA repair protein RadA; Provisional; Region: PRK11823 889378008054 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 889378008055 Walker A motif; other site 889378008056 ATP binding site [chemical binding]; other site 889378008057 Walker B motif; other site 889378008058 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 889378008059 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 889378008060 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 889378008061 active site residue [active] 889378008062 Rhodanese-like domain; Region: Rhodanese; pfam00581 889378008063 active site residue [active] 889378008064 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 889378008065 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 889378008066 catalytic triad [active] 889378008067 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 889378008068 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 889378008069 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 889378008070 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 889378008071 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 889378008072 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 889378008073 Leucine rich repeat; Region: LRR_8; pfam13855 889378008074 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 889378008075 CotH protein; Region: CotH; pfam08757 889378008076 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 889378008077 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 889378008078 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 889378008079 ATP binding site [chemical binding]; other site 889378008080 putative Mg++ binding site [ion binding]; other site 889378008081 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 889378008082 nucleotide binding region [chemical binding]; other site 889378008083 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 889378008084 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 889378008085 Ion transport protein; Region: Ion_trans; pfam00520 889378008086 Ion channel; Region: Ion_trans_2; pfam07885 889378008087 Methyltransferase domain; Region: Methyltransf_31; pfam13847 889378008088 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 889378008089 S-adenosylmethionine binding site [chemical binding]; other site 889378008090 beta-carotene hydroxylase; Region: PLN02601 889378008091 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 889378008092 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 889378008093 hinge; other site 889378008094 active site 889378008095 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 889378008096 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 889378008097 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 889378008098 active site 889378008099 metal binding site [ion binding]; metal-binding site 889378008100 Bacterial SH3 domain; Region: SH3_4; pfam06347 889378008101 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 889378008102 active site 889378008103 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 889378008104 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 889378008105 putative ATP binding site [chemical binding]; other site 889378008106 putative substrate interface [chemical binding]; other site 889378008107 Cache domain; Region: Cache_1; pfam02743 889378008108 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 889378008109 HAMP domain; Region: HAMP; pfam00672 889378008110 dimerization interface [polypeptide binding]; other site 889378008111 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 889378008112 dimer interface [polypeptide binding]; other site 889378008113 putative CheW interface [polypeptide binding]; other site 889378008114 heat shock protein 90; Provisional; Region: PRK05218 889378008115 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 889378008116 ATP binding site [chemical binding]; other site 889378008117 Mg2+ binding site [ion binding]; other site 889378008118 G-X-G motif; other site 889378008119 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 889378008120 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 889378008121 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 889378008122 catalytic residues [active] 889378008123 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 889378008124 Domain of unknown function DUF21; Region: DUF21; pfam01595 889378008125 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 889378008126 Transporter associated domain; Region: CorC_HlyC; smart01091 889378008127 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 889378008128 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 889378008129 HIGH motif; other site 889378008130 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 889378008131 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 889378008132 active site 889378008133 KMSKS motif; other site 889378008134 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 889378008135 tRNA binding surface [nucleotide binding]; other site 889378008136 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 889378008137 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 889378008138 Prephenate dehydratase; Region: PDT; pfam00800 889378008139 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 889378008140 putative L-Phe binding site [chemical binding]; other site 889378008141 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 889378008142 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 889378008143 N-acetyl-D-glucosamine binding site [chemical binding]; other site 889378008144 catalytic residue [active] 889378008145 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 889378008146 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 889378008147 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 889378008148 anti sigma factor interaction site; other site 889378008149 regulatory phosphorylation site [posttranslational modification]; other site 889378008150 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 889378008151 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 889378008152 Mg2+ binding site [ion binding]; other site 889378008153 G-X-G motif; other site 889378008154 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 889378008155 peptide binding site [polypeptide binding]; other site 889378008156 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 889378008157 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 889378008158 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 889378008159 Walker A motif; other site 889378008160 ATP binding site [chemical binding]; other site 889378008161 Walker B motif; other site 889378008162 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 889378008163 elongation factor G; Reviewed; Region: PRK12740 889378008164 G1 box; other site 889378008165 putative GEF interaction site [polypeptide binding]; other site 889378008166 GTP/Mg2+ binding site [chemical binding]; other site 889378008167 Switch I region; other site 889378008168 G2 box; other site 889378008169 G3 box; other site 889378008170 Switch II region; other site 889378008171 G4 box; other site 889378008172 G5 box; other site 889378008173 mtEFG1_C: C-terminus of mitochondrial Elongation factor G1 (mtEFG1)-like proteins found in eukaryotes. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating...; Region: mtEFG1_II_like; cd04091 889378008174 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 889378008175 Elongation factor G C-terminus. This domain includes the carboxyl terminal regions of elongation factors (EFs) bacterial EF-G, eukaryotic and archeal EF-2 and eukaryotic mitochondrial mtEFG1s and mtEFG2s. This group also includes proteins similar to the...; Region: Elongation_Factor_C; cl02785 889378008176 cyclase homology domain; Region: CHD; cd07302 889378008177 dimer interface [polypeptide binding]; other site 889378008178 nucleotidyl binding site; other site 889378008179 metal binding site [ion binding]; metal-binding site 889378008180 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 889378008181 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 889378008182 motif II; other site 889378008183 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 889378008184 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 889378008185 ligand binding site [chemical binding]; other site 889378008186 flexible hinge region; other site 889378008187 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 889378008188 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 889378008189 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK09616 889378008190 tRNA synthetase B5 domain; Region: B5; smart00874 889378008191 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 889378008192 dimer interface [polypeptide binding]; other site 889378008193 motif 1; other site 889378008194 motif 3; other site 889378008195 motif 2; other site 889378008196 phenylalanyl-tRNA synthetase subunit alpha; Provisional; Region: pheS; PRK04172 889378008197 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 889378008198 dimer interface [polypeptide binding]; other site 889378008199 motif 1; other site 889378008200 active site 889378008201 motif 2; other site 889378008202 motif 3; other site 889378008203 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 889378008204 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 889378008205 TPR motif; other site 889378008206 binding surface 889378008207 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 889378008208 binding surface 889378008209 TPR motif; other site 889378008210 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 889378008211 binding surface 889378008212 TPR motif; other site 889378008213 TPR repeat; Region: TPR_11; pfam13414 889378008214 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 889378008215 binding surface 889378008216 Tetratricopeptide repeat; Region: TPR_16; pfam13432 889378008217 TPR motif; other site 889378008218 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 889378008219 Interdomain contacts; other site 889378008220 Cytokine receptor motif; other site 889378008221 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 889378008222 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 889378008223 GIY-YIG motif/motif A; other site 889378008224 active site 889378008225 catalytic site [active] 889378008226 putative DNA binding site [nucleotide binding]; other site 889378008227 metal binding site [ion binding]; metal-binding site 889378008228 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 889378008229 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 889378008230 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 889378008231 LexA repressor; Validated; Region: PRK00215 889378008232 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 889378008233 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 889378008234 Catalytic site [active] 889378008235 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 889378008236 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 889378008237 active site 889378008238 phosphorylation site [posttranslational modification] 889378008239 intermolecular recognition site; other site 889378008240 dimerization interface [polypeptide binding]; other site 889378008241 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 889378008242 Walker A motif; other site 889378008243 ATP binding site [chemical binding]; other site 889378008244 Walker B motif; other site 889378008245 arginine finger; other site 889378008246 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 889378008247 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 889378008248 dimerization interface [polypeptide binding]; other site 889378008249 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 889378008250 dimer interface [polypeptide binding]; other site 889378008251 phosphorylation site [posttranslational modification] 889378008252 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 889378008253 ATP binding site [chemical binding]; other site 889378008254 Mg2+ binding site [ion binding]; other site 889378008255 G-X-G motif; other site 889378008256 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 889378008257 dimerization domain swap beta strand [polypeptide binding]; other site 889378008258 regulatory protein interface [polypeptide binding]; other site 889378008259 active site 889378008260 regulatory phosphorylation site [posttranslational modification]; other site 889378008261 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 889378008262 Hpr(Ser) kinase/phosphatase; Region: hpr-ser; TIGR00679 889378008263 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 889378008264 Hpr binding site; other site 889378008265 active site 889378008266 homohexamer subunit interaction site [polypeptide binding]; other site 889378008267 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; cl00250 889378008268 30S subunit binding site; other site 889378008269 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 889378008270 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 889378008271 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 889378008272 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 889378008273 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 889378008274 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 889378008275 Walker A/P-loop; other site 889378008276 ATP binding site [chemical binding]; other site 889378008277 Q-loop/lid; other site 889378008278 ABC transporter signature motif; other site 889378008279 Walker B; other site 889378008280 D-loop; other site 889378008281 H-loop/switch region; other site 889378008282 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 889378008283 CTP synthetase; Validated; Region: pyrG; PRK05380 889378008284 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 889378008285 Catalytic site [active] 889378008286 active site 889378008287 UTP binding site [chemical binding]; other site 889378008288 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 889378008289 active site 889378008290 putative oxyanion hole; other site 889378008291 catalytic triad [active] 889378008292 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 889378008293 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 889378008294 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 889378008295 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 889378008296 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 889378008297 active site 889378008298 phosphorylation site [posttranslational modification] 889378008299 intermolecular recognition site; other site 889378008300 dimerization interface [polypeptide binding]; other site 889378008301 CheB methylesterase; Region: CheB_methylest; pfam01339 889378008302 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 889378008303 active site 889378008304 metal binding site [ion binding]; metal-binding site 889378008305 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 889378008306 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 889378008307 putative dimer interface [polypeptide binding]; other site 889378008308 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_7; cd13133 889378008309 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 889378008310 HAMP domain; Region: HAMP; pfam00672 889378008311 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 889378008312 Histidine kinase; Region: HisKA_2; pfam07568 889378008313 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 889378008314 ATP binding site [chemical binding]; other site 889378008315 Mg2+ binding site [ion binding]; other site 889378008316 G-X-G motif; other site 889378008317 hypothetical protein; Provisional; Region: PRK10621 889378008318 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 889378008319 Predicted periplasmic lipoprotein (DUF2279); Region: DUF2279; cl11574 889378008320 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 889378008321 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 889378008322 ATP binding site [chemical binding]; other site 889378008323 Mg2+ binding site [ion binding]; other site 889378008324 G-X-G motif; other site 889378008325 Domain of unknown function (DUF389); Region: DUF389; cl00781 889378008326 methionine sulfoxide reductase B; Provisional; Region: PRK00222 889378008327 SelR domain; Region: SelR; pfam01641 889378008328 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 889378008329 Glycerophosphodiester phosphodiesterase domain of Streptomyces coelicolor cytoplasmic phosphodiesterases UgpQ2 and similar proteins; Region: GDPD_cytoplasmic_ScUgpQ2_like; cd08561 889378008330 putative active site [active] 889378008331 catalytic site [active] 889378008332 putative metal binding site [ion binding]; other site 889378008333 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 889378008334 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 889378008335 catalytic residue [active] 889378008336 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 889378008337 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 889378008338 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 889378008339 peroxiredoxin; Region: AhpC; TIGR03137 889378008340 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 889378008341 dimer interface [polypeptide binding]; other site 889378008342 decamer (pentamer of dimers) interface [polypeptide binding]; other site 889378008343 catalytic triad [active] 889378008344 peroxidatic and resolving cysteines [active] 889378008345 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 889378008346 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 889378008347 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 889378008348 dimerization interface [polypeptide binding]; other site 889378008349 Domain of unknown function DUF302; Region: DUF302; cl01364 889378008350 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 889378008351 Mechanosensitive ion channel; Region: MS_channel; pfam00924 889378008352 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 889378008353 nucleotide binding site/active site [active] 889378008354 HIT family signature motif; other site 889378008355 catalytic residue [active] 889378008356 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 889378008357 homodimer interface [polypeptide binding]; other site 889378008358 substrate-cofactor binding pocket; other site 889378008359 pyridoxal 5'-phosphate binding site [chemical binding]; other site 889378008360 catalytic residue [active] 889378008361 Predicted transcriptional regulators [Transcription]; Region: COG1378 889378008362 Sugar-specific transcriptional regulator TrmB; Region: TrmB; pfam01978 889378008363 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 889378008364 C-terminal domain interface [polypeptide binding]; other site 889378008365 sugar binding site [chemical binding]; other site 889378008366 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 889378008367 Citrate synthase; Region: Citrate_synt; pfam00285 889378008368 oxalacetate binding site [chemical binding]; other site 889378008369 citrylCoA binding site [chemical binding]; other site 889378008370 coenzyme A binding site [chemical binding]; other site 889378008371 catalytic triad [active] 889378008372 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 889378008373 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 889378008374 dimer interface [polypeptide binding]; other site 889378008375 anticodon binding site; other site 889378008376 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 889378008377 homodimer interface [polypeptide binding]; other site 889378008378 motif 1; other site 889378008379 active site 889378008380 motif 2; other site 889378008381 GAD domain; Region: GAD; pfam02938 889378008382 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 889378008383 motif 3; other site 889378008384 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 889378008385 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 889378008386 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; Region: 2-Hacid_dh; pfam00389 889378008387 putative ligand binding site [chemical binding]; other site 889378008388 putative NAD binding site [chemical binding]; other site 889378008389 putative catalytic site [active] 889378008390 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 889378008391 L-serine binding site [chemical binding]; other site 889378008392 ACT domain interface; other site 889378008393 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 889378008394 active site 889378008395 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 889378008396 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 889378008397 EamA-like transporter family; Region: EamA; pfam00892 889378008398 EamA-like transporter family; Region: EamA; pfam00892 889378008399 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 889378008400 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 889378008401 metal binding site [ion binding]; metal-binding site 889378008402 active site 889378008403 I-site; other site 889378008404 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 889378008405 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 889378008406 cyclase homology domain; Region: CHD; cd07302 889378008407 nucleotidyl binding site; other site 889378008408 metal binding site [ion binding]; metal-binding site 889378008409 dimer interface [polypeptide binding]; other site 889378008410 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 889378008411 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 889378008412 Sporulation related domain; Region: SPOR; pfam05036 889378008413 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 889378008414 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 889378008415 CoA-binding site [chemical binding]; other site 889378008416 ATP-binding [chemical binding]; other site 889378008417 DNA polymerase I; Region: pola; TIGR00593 889378008418 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 889378008419 active site 889378008420 metal binding site 1 [ion binding]; metal-binding site 889378008421 putative 5' ssDNA interaction site; other site 889378008422 metal binding site 3; metal-binding site 889378008423 metal binding site 2 [ion binding]; metal-binding site 889378008424 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 889378008425 putative DNA binding site [nucleotide binding]; other site 889378008426 putative metal binding site [ion binding]; other site 889378008427 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 889378008428 active site 889378008429 catalytic site [active] 889378008430 substrate binding site [chemical binding]; other site 889378008431 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 889378008432 active site 889378008433 DNA binding site [nucleotide binding] 889378008434 catalytic site [active] 889378008435 FlgN protein; Region: FlgN; pfam05130 889378008436 Flagellin-specific chaperone FliS [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliS; COG1516 889378008437 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 889378008438 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 889378008439 NodB motif; other site 889378008440 active site 889378008441 metal binding site [ion binding]; metal-binding site 889378008442 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 889378008443 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 889378008444 putative ligand binding site [chemical binding]; other site 889378008445 putative NAD binding site [chemical binding]; other site 889378008446 catalytic site [active] 889378008447 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 889378008448 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 889378008449 putative active site [active] 889378008450 PhoH-like protein; Region: PhoH; pfam02562 889378008451 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 889378008452 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 889378008453 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 889378008454 ATP binding site [chemical binding]; other site 889378008455 putative Mg++ binding site [ion binding]; other site 889378008456 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 889378008457 nucleotide binding region [chemical binding]; other site 889378008458 ATP-binding site [chemical binding]; other site 889378008459 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 889378008460 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 889378008461 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 889378008462 active site 889378008463 catalytic residue [active] 889378008464 dimer interface [polypeptide binding]; other site 889378008465 shikimate-5-dehydrogenase, fungal AROM-type; Region: Shik-DH-AROM; TIGR01809 889378008466 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 889378008467 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 889378008468 shikimate binding site; other site 889378008469 NAD(P) binding site [chemical binding]; other site 889378008470 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 889378008471 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 889378008472 Walker A/P-loop; other site 889378008473 ATP binding site [chemical binding]; other site 889378008474 Q-loop/lid; other site 889378008475 ABC transporter signature motif; other site 889378008476 Walker B; other site 889378008477 D-loop; other site 889378008478 H-loop/switch region; other site 889378008479 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 889378008480 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 889378008481 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 889378008482 Walker A/P-loop; other site 889378008483 ATP binding site [chemical binding]; other site 889378008484 Q-loop/lid; other site 889378008485 ABC transporter signature motif; other site 889378008486 Walker B; other site 889378008487 D-loop; other site 889378008488 H-loop/switch region; other site 889378008489 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 889378008490 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 889378008491 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 889378008492 dimer interface [polypeptide binding]; other site 889378008493 conserved gate region; other site 889378008494 putative PBP binding loops; other site 889378008495 ABC-ATPase subunit interface; other site 889378008496 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 889378008497 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 889378008498 dimer interface [polypeptide binding]; other site 889378008499 conserved gate region; other site 889378008500 putative PBP binding loops; other site 889378008501 ABC-ATPase subunit interface; other site 889378008502 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 889378008503 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_4; cd08500 889378008504 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 889378008505 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 889378008506 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 889378008507 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 889378008508 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 889378008509 N-acetyl-D-glucosamine binding site [chemical binding]; other site 889378008510 catalytic residue [active] 889378008511 heat shock protein 70; Region: dnaK; CHL00094 889378008512 Tetratricopeptide repeat; Region: TPR_16; pfam13432 889378008513 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 889378008514 binding surface 889378008515 Tetratricopeptide repeat; Region: TPR_16; pfam13432 889378008516 TPR motif; other site 889378008517 Restriction endonuclease; Region: Mrr_cat; pfam04471 889378008518 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 889378008519 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; cl17726 889378008520 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 889378008521 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 889378008522 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 889378008523 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 889378008524 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 889378008525 trmE is a tRNA modification GTPase; Region: trmE; cd04164 889378008526 G1 box; other site 889378008527 GTP/Mg2+ binding site [chemical binding]; other site 889378008528 Switch I region; other site 889378008529 G2 box; other site 889378008530 Switch II region; other site 889378008531 G3 box; other site 889378008532 G4 box; other site 889378008533 G5 box; other site 889378008534 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 889378008535 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 889378008536 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 889378008537 active site 889378008538 catalytic site [active] 889378008539 alanine racemase; Reviewed; Region: alr; PRK00053 889378008540 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 889378008541 active site 889378008542 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 889378008543 dimer interface [polypeptide binding]; other site 889378008544 substrate binding site [chemical binding]; other site 889378008545 catalytic residues [active] 889378008546 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 889378008547 peptidase T; Region: peptidase-T; TIGR01882 889378008548 metal binding site [ion binding]; metal-binding site 889378008549 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 889378008550 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 889378008551 Uncharacterized homolog of PrgY (pheromone shutdown protein) [Function unknown]; Region: COG1916 889378008552 DHH family; Region: DHH; pfam01368 889378008553 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 889378008554 TPR motif; other site 889378008555 binding surface 889378008556 TPR repeat; Region: TPR_11; pfam13414 889378008557 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 889378008558 binding surface 889378008559 TPR motif; other site 889378008560 TPR repeat; Region: TPR_11; pfam13414 889378008561 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 889378008562 binding surface 889378008563 TPR motif; other site 889378008564 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 889378008565 catalytic core [active] 889378008566 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 889378008567 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 889378008568 TPP-binding site [chemical binding]; other site 889378008569 dimer interface [polypeptide binding]; other site 889378008570 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 889378008571 PYR/PP interface [polypeptide binding]; other site 889378008572 dimer interface [polypeptide binding]; other site 889378008573 TPP binding site [chemical binding]; other site 889378008574 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 889378008575 tartrate dehydrogenase; Region: TTC; TIGR02089 889378008576 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 889378008577 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 889378008578 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 889378008579 catalytic residues [active] 889378008580 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 889378008581 metal binding site [ion binding]; metal-binding site 889378008582 dihydroorotase; Provisional; Region: PRK05451 889378008583 active site 889378008584 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 889378008585 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 889378008586 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 889378008587 putative trimer interface [polypeptide binding]; other site 889378008588 putative CoA binding site [chemical binding]; other site 889378008589 HD domain; Region: HD; pfam01966 889378008590 threonine synthase; Validated; Region: PRK09225 889378008591 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 889378008592 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 889378008593 catalytic residue [active] 889378008594 aspartate kinase; Provisional; Region: PRK06291 889378008595 AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such...; Region: AAK_AK-HSDH-like; cd04243 889378008596 putative catalytic residues [active] 889378008597 nucleotide binding site [chemical binding]; other site 889378008598 aspartate binding site [chemical binding]; other site 889378008599 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 889378008600 dimer interface [polypeptide binding]; other site 889378008601 putative threonine allosteric regulatory site; other site 889378008602 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase); Region: ACT_AK-like_2; cd04892 889378008603 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 889378008604 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 889378008605 hinge; other site 889378008606 active site 889378008607 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 889378008608 HSP70 interaction site [polypeptide binding]; other site 889378008609 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 889378008610 DNA binding site [nucleotide binding] 889378008611 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 889378008612 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 889378008613 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 889378008614 anti sigma factor interaction site; other site 889378008615 regulatory phosphorylation site [posttranslational modification]; other site 889378008616 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 889378008617 NAD(P) binding site [chemical binding]; other site 889378008618 active site 889378008619 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 889378008620 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 889378008621 Walker A motif; other site 889378008622 ATP binding site [chemical binding]; other site 889378008623 Walker B motif; other site 889378008624 arginine finger; other site 889378008625 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 889378008626 Glycosyl transferase WecB/TagA/CpsF family; Region: Glyco_tran_WecB; pfam03808 889378008627 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 889378008628 RNA methyltransferase, RsmE family; Region: TIGR00046 889378008629 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 889378008630 C-terminal peptidase (prc); Region: prc; TIGR00225 889378008631 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 889378008632 protein binding site [polypeptide binding]; other site 889378008633 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 889378008634 Catalytic dyad [active] 889378008635 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 889378008636 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 889378008637 P-loop; other site 889378008638 Protein of unknown function (DUF342); Region: DUF342; pfam03961 889378008639 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 889378008640 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 889378008641 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 889378008642 putative active site [active] 889378008643 catalytic triad [active] 889378008644 putative dimer interface [polypeptide binding]; other site 889378008645 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 889378008646 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 889378008647 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 889378008648 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 889378008649 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 889378008650 Zn2+ binding site [ion binding]; other site 889378008651 Mg2+ binding site [ion binding]; other site 889378008652 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 889378008653 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 889378008654 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 889378008655 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 889378008656 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 889378008657 ligand binding site [chemical binding]; other site 889378008658 homodimer interface [polypeptide binding]; other site 889378008659 NAD(P) binding site [chemical binding]; other site 889378008660 trimer interface B [polypeptide binding]; other site 889378008661 trimer interface A [polypeptide binding]; other site 889378008662 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_12; cd13142 889378008663 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 889378008664 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 889378008665 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 889378008666 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 889378008667 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 889378008668 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 889378008669 dimer interface [polypeptide binding]; other site 889378008670 conserved gate region; other site 889378008671 putative PBP binding loops; other site 889378008672 ABC-ATPase subunit interface; other site 889378008673 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 889378008674 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 889378008675 dimer interface [polypeptide binding]; other site 889378008676 conserved gate region; other site 889378008677 putative PBP binding loops; other site 889378008678 ABC-ATPase subunit interface; other site 889378008679 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 889378008680 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 889378008681 Transcriptional regulators [Transcription]; Region: PurR; COG1609 889378008682 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 889378008683 DNA binding site [nucleotide binding] 889378008684 domain linker motif; other site 889378008685 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 889378008686 ligand binding site [chemical binding]; other site 889378008687 dimerization interface [polypeptide binding]; other site 889378008688 Predicted secreted protein (DUF2259); Region: DUF2259; cl02309 889378008689 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 889378008690 phytoene desaturase; Region: crtI_fam; TIGR02734 889378008691 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 889378008692 prolyl-tRNA synthetase; Provisional; Region: PRK08661 889378008693 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 889378008694 dimer interface [polypeptide binding]; other site 889378008695 motif 1; other site 889378008696 active site 889378008697 motif 2; other site 889378008698 motif 3; other site 889378008699 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 889378008700 anticodon binding site; other site 889378008701 zinc-binding site [ion binding]; other site 889378008702 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 889378008703 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 889378008704 NAD synthetase; Provisional; Region: PRK13981 889378008705 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 889378008706 multimer interface [polypeptide binding]; other site 889378008707 active site 889378008708 catalytic triad [active] 889378008709 protein interface 1 [polypeptide binding]; other site 889378008710 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 889378008711 homodimer interface [polypeptide binding]; other site 889378008712 NAD binding pocket [chemical binding]; other site 889378008713 ATP binding pocket [chemical binding]; other site 889378008714 Mg binding site [ion binding]; other site 889378008715 active-site loop [active] 889378008716 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 889378008717 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 889378008718 ApbE family; Region: ApbE; pfam02424 889378008719 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 889378008720 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; cl17432 889378008721 membrane-bound complex binding site; other site 889378008722 hinge residues; other site 889378008723 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 889378008724 putative metal binding site [ion binding]; other site 889378008725 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 889378008726 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 889378008727 Integral membrane protein DUF92; Region: DUF92; cl00793 889378008728 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 889378008729 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 889378008730 putative CheA interaction surface; other site 889378008731 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 889378008732 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 889378008733 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 889378008734 putative active site [active] 889378008735 putative metal binding site [ion binding]; other site 889378008736 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 889378008737 Peptidase family M23; Region: Peptidase_M23; pfam01551 889378008738 polyphosphate kinase; Provisional; Region: PRK05443 889378008739 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 889378008740 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 889378008741 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 889378008742 putative domain interface [polypeptide binding]; other site 889378008743 putative active site [active] 889378008744 catalytic site [active] 889378008745 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 889378008746 putative domain interface [polypeptide binding]; other site 889378008747 putative active site [active] 889378008748 catalytic site [active] 889378008749 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 889378008750 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 889378008751 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 889378008752 Zn2+ binding site [ion binding]; other site 889378008753 Mg2+ binding site [ion binding]; other site 889378008754 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 889378008755 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 889378008756 nucleotide binding site [chemical binding]; other site 889378008757 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 889378008758 active site 889378008759 nucleotide binding site [chemical binding]; other site 889378008760 HIGH motif; other site 889378008761 KMSKS motif; other site 889378008762 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 889378008763 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 889378008764 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 889378008765 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 889378008766 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 889378008767 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 889378008768 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 889378008769 FAD binding pocket [chemical binding]; other site 889378008770 FAD binding motif [chemical binding]; other site 889378008771 phosphate binding motif [ion binding]; other site 889378008772 beta-alpha-beta structure motif; other site 889378008773 NAD binding pocket [chemical binding]; other site 889378008774 Iron coordination center [ion binding]; other site 889378008775 putative oxidoreductase; Provisional; Region: PRK12831 889378008776 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 889378008777 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 889378008778 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 889378008779 active site 889378008780 phosphorylation site [posttranslational modification] 889378008781 intermolecular recognition site; other site 889378008782 dimerization interface [polypeptide binding]; other site 889378008783 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 889378008784 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 889378008785 ATP binding site [chemical binding]; other site 889378008786 Mg2+ binding site [ion binding]; other site 889378008787 G-X-G motif; other site 889378008788 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 889378008789 tetramerization interface [polypeptide binding]; other site 889378008790 active site 889378008791 Type III pantothenate kinase; Region: Pan_kinase; cl17198 889378008792 pantoate--beta-alanine ligase; Reviewed; Region: panC; PRK00380 889378008793 pantoate--beta-alanine ligase; Region: panC; TIGR00018 889378008794 active site 889378008795 nucleotide binding site [chemical binding]; other site 889378008796 HIGH motif; other site 889378008797 KMSKS motif; other site 889378008798 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 889378008799 oligomerization interface [polypeptide binding]; other site 889378008800 active site 889378008801 metal binding site [ion binding]; metal-binding site 889378008802 L-aspartate oxidase; Provisional; Region: PRK09077 889378008803 L-aspartate oxidase; Provisional; Region: PRK06175 889378008804 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 889378008805 Quinolinate synthetase A protein; Region: NadA; pfam02445 889378008806 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 889378008807 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 889378008808 dimerization interface [polypeptide binding]; other site 889378008809 active site 889378008810 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 889378008811 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 889378008812 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 889378008813 Coenzyme A binding pocket [chemical binding]; other site 889378008814 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 889378008815 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 889378008816 inhibitor-cofactor binding pocket; inhibition site 889378008817 pyridoxal 5'-phosphate binding site [chemical binding]; other site 889378008818 catalytic residue [active] 889378008819 Ectoine synthase; Region: Ectoine_synth; pfam06339 889378008820 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 889378008821 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 889378008822 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 889378008823 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 889378008824 Outer membrane efflux protein; Region: OEP; pfam02321 889378008825 Outer membrane efflux protein; Region: OEP; pfam02321 889378008826 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 889378008827 HlyD family secretion protein; Region: HlyD_3; pfam13437 889378008828 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 889378008829 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 889378008830 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 889378008831 active site 889378008832 metal binding site [ion binding]; metal-binding site 889378008833 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 889378008834 Catalytic domain of Protein Kinases; Region: PKc; cd00180 889378008835 active site 889378008836 ATP binding site [chemical binding]; other site 889378008837 substrate binding site [chemical binding]; other site 889378008838 activation loop (A-loop); other site 889378008839 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cl00062 889378008840 phosphopeptide binding site; other site 889378008841 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 889378008842 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 889378008843 metal ion-dependent adhesion site (MIDAS); other site 889378008844 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cl00062 889378008845 phosphopeptide binding site; other site 889378008846 YhhN-like protein; Region: YhhN; pfam07947 889378008847 aspartyl-tRNA synthetase; Provisional; Region: aspC; PRK05159 889378008848 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 889378008849 Dimer interface [polypeptide binding]; other site 889378008850 anticodon binding site; other site 889378008851 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 889378008852 motif 1; other site 889378008853 dimer interface [polypeptide binding]; other site 889378008854 active site 889378008855 motif 2; other site 889378008856 motif 3; other site 889378008857 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 889378008858 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 889378008859 GatB domain; Region: GatB_Yqey; smart00845 889378008860 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 889378008861 indole-3-acetamide amidohydrolase; Region: PLN02722 889378008862 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 889378008863 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 889378008864 Trehalase; Region: Trehalase; cl17346 889378008865 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 889378008866 putative NADH binding site [chemical binding]; other site 889378008867 putative active site [active] 889378008868 nudix motif; other site 889378008869 putative metal binding site [ion binding]; other site 889378008870 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 889378008871 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 889378008872 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 889378008873 Tetramer interface [polypeptide binding]; other site 889378008874 active site 889378008875 FMN-binding site [chemical binding]; other site 889378008876 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 889378008877 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 889378008878 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 889378008879 putative active site [active] 889378008880 catalytic residue [active] 889378008881 recombination protein RecR; Reviewed; Region: recR; PRK00076 889378008882 RecR protein; Region: RecR; pfam02132 889378008883 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 889378008884 putative active site [active] 889378008885 putative metal-binding site [ion binding]; other site 889378008886 tetramer interface [polypeptide binding]; other site 889378008887 hypothetical protein; Validated; Region: PRK00153 889378008888 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 889378008889 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 889378008890 Walker A motif; other site 889378008891 ATP binding site [chemical binding]; other site 889378008892 Walker B motif; other site 889378008893 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 889378008894 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 889378008895 ParB-like nuclease domain; Region: ParBc; pfam02195 889378008896 KorB domain; Region: KorB; pfam08535 889378008897 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 889378008898 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 889378008899 P-loop; other site 889378008900 Magnesium ion binding site [ion binding]; other site 889378008901 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 889378008902 Magnesium ion binding site [ion binding]; other site 889378008903 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 889378008904 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 889378008905 active site 889378008906 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 889378008907 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 889378008908 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 889378008909 DNA gyrase subunit A; Validated; Region: PRK05560 889378008910 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 889378008911 CAP-like domain; other site 889378008912 active site 889378008913 primary dimer interface [polypeptide binding]; other site 889378008914 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 889378008915 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 889378008916 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 889378008917 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 889378008918 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 889378008919 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 889378008920 Mg2+ binding site [ion binding]; other site 889378008921 G-X-G motif; other site 889378008922 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 889378008923 anchoring element; other site 889378008924 dimer interface [polypeptide binding]; other site 889378008925 ATP binding site [chemical binding]; other site 889378008926 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 889378008927 active site 889378008928 putative metal-binding site [ion binding]; other site 889378008929 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986