-- dump date 20111121_014556 -- class Genbank::misc_feature -- table misc_feature_note -- id note 546271000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 546271000002 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...; Region: AAA; cd00009 546271000003 Walker A motif; other site 546271000004 ATP binding site [chemical binding]; other site 546271000005 Walker B motif; other site 546271000006 arginine finger; other site 546271000007 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 546271000008 DnaA box-binding interface [nucleotide binding]; other site 546271000009 DNA polymerase III subunit beta; Validated; Region: PRK05643 546271000010 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...; Region: beta_clamp; cd00140 546271000011 putative DNA binding surface [nucleotide binding]; other site 546271000012 dimer interface [polypeptide binding]; other site 546271000013 beta-clamp/clamp loader binding surface; other site 546271000014 beta-clamp/translesion DNA polymerase binding surface; other site 546271000015 recombination protein F; Reviewed; Region: recF; PRK00064 546271000016 RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication...; Region: ABC_RecF; cd03242 546271000017 Walker A/P-loop; other site 546271000018 ATP binding site [chemical binding]; other site 546271000019 Q-loop/lid; other site 546271000020 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271000021 ABC transporter signature motif; other site 546271000022 Walker B; other site 546271000023 D-loop; other site 546271000024 H-loop/switch region; other site 546271000025 Protein of unknown function (DUF721); Region: DUF721; cl02324 546271000026 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 546271000027 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 546271000028 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 546271000029 anchoring element; other site 546271000030 dimer interface [polypeptide binding]; other site 546271000031 ATP binding site [chemical binding]; other site 546271000032 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...; Region: TOPRIM_TopoIIA_GyrB; cd03366 546271000033 active site 546271000034 putative metal-binding site [ion binding]; other site 546271000035 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 546271000036 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 546271000037 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_man; cl00025 546271000038 DAK2 domain; Region: Dak2; cl03685 546271000039 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 546271000040 dimer interface [polypeptide binding]; other site 546271000041 active site 546271000042 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 546271000043 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...; Region: AAA; cd00009 546271000044 Walker A motif; other site 546271000045 ATP binding site [chemical binding]; other site 546271000046 Walker B motif; other site 546271000047 arginine finger; other site 546271000048 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 546271000049 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 546271000050 recombination protein RecR; Reviewed; Region: recR; PRK00076 546271000051 RecR protein; Region: RecR; pfam02132 546271000052 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 546271000053 putative active site [active] 546271000054 putative metal-binding site [ion binding]; other site 546271000055 tetramer interface [polypeptide binding]; other site 546271000056 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 546271000057 putative substrate translocation pore; other site 546271000058 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 546271000059 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 546271000060 bifunctional hydroxy-methylpyrimidine kinase/ hydroxy-phosphomethylpyrimidine kinase; Reviewed; Region: PRK06427 546271000061 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 546271000062 dimer interface [polypeptide binding]; other site 546271000063 substrate binding site [chemical binding]; other site 546271000064 ATP binding site [chemical binding]; other site 546271000065 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 546271000066 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...; Region: SHMT; cd00378 546271000067 dimer interface [polypeptide binding]; other site 546271000068 glycine-pyridoxal phosphate binding site [chemical binding]; other site 546271000069 active site 546271000070 folate binding site [chemical binding]; other site 546271000071 exopolyphosphatase; Region: exo_poly_only; TIGR03706 546271000072 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 546271000073 Peptidase family M23; Region: Peptidase_M23; pfam01551 546271000074 Polymer-forming cytoskeletal; Region: Bactofilin; cl09137 546271000075 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 546271000076 intersubunit interface [polypeptide binding]; other site 546271000077 active site 546271000078 catalytic residue [active] 546271000079 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 546271000080 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 546271000081 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 546271000082 FMN binding site [chemical binding]; other site 546271000083 dimer interface [polypeptide binding]; other site 546271000084 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 546271000085 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 546271000086 Chain length determinant protein; Region: Wzz; cl01623 546271000087 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 546271000088 Chain length determinant protein; Region: Wzz; cl01623 546271000089 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 546271000090 Bacterial sugar transferase; Region: Bac_transf; cl00939 546271000091 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 546271000092 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 546271000093 active site 546271000094 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 546271000095 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 546271000096 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 546271000097 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 546271000098 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 546271000099 NADP-binding site; other site 546271000100 homotetramer interface [polypeptide binding]; other site 546271000101 substrate binding site [chemical binding]; other site 546271000102 homodimer interface [polypeptide binding]; other site 546271000103 active site 546271000104 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 546271000105 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 546271000106 NADP-binding site; other site 546271000107 homotetramer interface [polypeptide binding]; other site 546271000108 substrate binding site [chemical binding]; other site 546271000109 homodimer interface [polypeptide binding]; other site 546271000110 active site 546271000111 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 546271000112 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 546271000113 NADP binding site [chemical binding]; other site 546271000114 active site 546271000115 putative substrate binding site [chemical binding]; other site 546271000116 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 546271000117 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271000118 Walker A/P-loop; other site 546271000119 ATP binding site [chemical binding]; other site 546271000120 Q-loop/lid; other site 546271000121 ABC transporter signature motif; other site 546271000122 Walker B; other site 546271000123 D-loop; other site 546271000124 H-loop/switch region; other site 546271000125 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 546271000126 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 546271000127 4Fe-4S binding domain; Region: Fer4; cl02805 546271000128 coenzyme F420-reducing hydrogenase subunit beta; Validated; Region: PRK09325 546271000129 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 546271000130 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 546271000131 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 6-...; Region: LbH_MAT_like; cd04647 546271000132 trimer interface [polypeptide binding]; other site 546271000133 active site 546271000134 substrate binding site [chemical binding]; other site 546271000135 CoA binding site [chemical binding]; other site 546271000136 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 546271000137 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 546271000138 NAD(P) binding site [chemical binding]; other site 546271000139 homodimer interface [polypeptide binding]; other site 546271000140 substrate binding site [chemical binding]; other site 546271000141 active site 546271000142 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 546271000143 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 546271000144 inhibitor-cofactor binding pocket; inhibition site 546271000145 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546271000146 catalytic residue [active] 546271000147 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 546271000148 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...; Region: Aldo_ket_red; cd06660 546271000149 active site 546271000150 catalytic tetrad [active] 546271000151 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 546271000152 ligand binding site [chemical binding]; other site 546271000153 glutamate-1-semialdehyde 2,1-aminomutase; Provisional; Region: PRK06209 546271000154 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 546271000155 inhibitor-cofactor binding pocket; inhibition site 546271000156 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546271000157 catalytic residue [active] 546271000158 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 546271000159 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 546271000160 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 546271000161 active site 546271000162 cosubstrate binding site; other site 546271000163 substrate binding site [chemical binding]; other site 546271000164 catalytic site [active] 546271000165 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_1; cd08821 546271000166 putative active site [active] 546271000167 putative substrate binding site [chemical binding]; other site 546271000168 putative cosubstrate binding site; other site 546271000169 catalytic site [active] 546271000170 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 546271000171 pseudaminic acid synthase; Region: PseI; TIGR03586 546271000172 NeuB family; Region: NeuB; cl00496 546271000173 SAF domain; Region: SAF; cl00555 546271000174 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 546271000175 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 546271000176 active site 546271000177 Cupin domain; Region: Cupin_2; cl09118 546271000178 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons...; Region: RT_like; cl02808 546271000179 active site 546271000180 NTP binding site [chemical binding]; other site 546271000181 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 546271000182 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271000183 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 546271000184 active site 546271000185 metal binding site [ion binding]; metal-binding site 546271000186 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 546271000187 RelB antitoxin; Region: RelB; cl01171 546271000188 putative metal dependent hydrolase; Provisional; Region: PRK11598 546271000189 Sulfatase; Region: Sulfatase; cl10460 546271000190 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 546271000191 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 546271000192 Peptidase family M48; Region: Peptidase_M48; cl12018 546271000193 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 546271000194 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 546271000195 binding surface 546271000196 TPR motif; other site 546271000197 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 546271000198 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 546271000199 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...; Region: PBPb; cd00134 546271000200 substrate binding pocket [chemical binding]; other site 546271000201 membrane-bound complex binding site; other site 546271000202 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 546271000203 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 546271000204 substrate binding pocket [chemical binding]; other site 546271000205 membrane-bound complex binding site; other site 546271000206 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 546271000207 metal binding site [ion binding]; metal-binding site 546271000208 active site 546271000209 I-site; other site 546271000210 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 546271000211 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 546271000212 binding surface 546271000213 TPR motif; other site 546271000214 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 546271000215 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 546271000216 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 546271000217 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 546271000218 Surface antigen; Region: Bac_surface_Ag; cl03097 546271000219 haemagglutination activity domain; Region: Haemagg_act; cl05436 546271000220 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 546271000221 S-layer homology domain; Region: SLH; pfam00395 546271000222 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 546271000223 plasma-membrane calcium-translocating P-type ATPase; Region: ATPase-IIB_Ca; TIGR01517 546271000224 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 546271000225 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; cl11391 546271000226 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 546271000227 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 546271000228 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 546271000229 putative metal binding site [ion binding]; other site 546271000230 Tellurium resistance protein; Region: Tellurium_res; pfam10138 546271000231 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 546271000232 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 546271000233 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 546271000234 putative metal binding site [ion binding]; other site 546271000235 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 546271000236 putative metal binding site [ion binding]; other site 546271000237 Protein of unknown function DUF124; Region: DUF124; cl00884 546271000238 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 546271000239 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 546271000240 putative metal binding site [ion binding]; other site 546271000241 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 546271000242 putative metal binding site [ion binding]; other site 546271000243 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; cl09155 546271000244 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 546271000245 ribose-phosphate pyrophosphokinase; Region: ribP_PPkin; TIGR01251 546271000246 Protein of unknown function (DUF3706); Region: DUF3706; pfam12500 546271000247 Protein of unknown function (DUF2983); Region: DUF2983; pfam11202 546271000248 Sucrose-6F-phosphate phosphohydrolase; Region: S6PP; pfam05116 546271000249 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 546271000250 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 546271000251 Sulfatase; Region: Sulfatase; cl10460 546271000252 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 546271000253 S-layer homology domain; Region: SLH; pfam00395 546271000254 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 546271000255 Response regulator receiver domain; Region: Response_reg; pfam00072 546271000256 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 546271000257 active site 546271000258 phosphorylation site [posttranslational modification] 546271000259 intermolecular recognition site; other site 546271000260 dimerization interface [polypeptide binding]; other site 546271000261 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 546271000262 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 546271000263 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 546271000264 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria...; Region: Cytochrome_b_N; cl00859 546271000265 Hydrogenase expression/synthesis hypA family; Region: HypA; cl00418 546271000266 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 546271000267 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase...; Region: H2MP_MemB-H2up; cd06062 546271000268 putative substrate-binding site; other site 546271000269 nickel binding site [ion binding]; other site 546271000270 HupF/HypC family; Region: HupF_HypC; cl00394 546271000271 Hydrogenase formation hypA family; Region: HypD; cl12072 546271000272 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypD; COG0409 546271000273 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 546271000274 dimerization interface [polypeptide binding]; other site 546271000275 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 546271000276 ATP binding site [chemical binding]; other site 546271000277 6-carboxyhexanoate--CoA ligase; Region: BioW; cl00625 546271000278 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 546271000279 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS), 8-amino-7-...; Region: KBL_like; cd06454 546271000280 substrate-cofactor binding pocket; other site 546271000281 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546271000282 catalytic residue [active] 546271000283 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 546271000284 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 546271000285 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; cl09110 546271000286 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 546271000287 FeS/SAM binding site; other site 546271000288 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 546271000289 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 546271000290 YvrJ protein family; Region: YvrJ; pfam12841 546271000291 Nitrous oxide-stimulated promoter; Region: YgbA_NO; cl08119 546271000292 Sensor protein DegS; Region: DegS; pfam05384 546271000293 Histidine kinase; Region: HisKA_3; pfam07730 546271000294 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 546271000295 ATP binding site [chemical binding]; other site 546271000296 Mg2+ binding site [ion binding]; other site 546271000297 G-X-G motif; other site 546271000298 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 546271000299 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 546271000300 catalytic residue [active] 546271000301 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 546271000302 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 546271000303 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 546271000304 NADP binding site [chemical binding]; other site 546271000305 active site 546271000306 putative substrate binding site [chemical binding]; other site 546271000307 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 546271000308 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546271000309 NAD(P) binding site [chemical binding]; other site 546271000310 active site 546271000311 Cupin domain; Region: Cupin_2; cl09118 546271000312 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 546271000313 putative active site [active] 546271000314 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 546271000315 MatE; Region: MatE; pfam01554 546271000316 MatE; Region: MatE; pfam01554 546271000317 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 546271000318 regulatory protein UhpC; Provisional; Region: PRK11663 546271000319 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 546271000320 putative substrate translocation pore; other site 546271000321 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 546271000322 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 546271000323 active site 546271000324 metal binding site [ion binding]; metal-binding site 546271000325 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 546271000326 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 546271000327 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 546271000328 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 546271000329 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl00539 546271000330 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 546271000331 NADH dehydrogenase; Region: NADHdh; cl00469 546271000332 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 546271000333 4Fe-4S binding domain; Region: Fer4; cl02805 546271000334 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 546271000335 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 546271000336 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 546271000337 NAD(P)H-quinone oxidoreductase subunit F; Validated; Region: PRK07376 546271000338 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 546271000339 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 546271000340 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 546271000341 NADH:ubiquinone oxidoreductase subunit 2 (chain N) [Energy production and conversion]; Region: NuoN; COG1007 546271000342 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 546271000343 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 546271000344 Uncharacterized conserved protein [Function unknown]; Region: COG3410 546271000345 Transposase domain (DUF772); Region: DUF772; cl12084 546271000346 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 546271000347 Predicted transcriptional regulator [Transcription]; Region: COG2378 546271000348 Predicted transcriptional regulator [Transcription]; Region: COG2378 546271000349 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl14784 546271000350 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl14784 546271000351 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 546271000352 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 546271000353 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 546271000354 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 546271000355 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 546271000356 CRISPR-associated protein, TIGR03984 family; Region: TIGR03984 546271000357 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 546271000358 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 546271000359 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 546271000360 HIGH motif; other site 546271000361 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 546271000362 active site 546271000363 KMSKS motif; other site 546271000364 Protein of unknown function (DUF541); Region: SIMPL; cl01077 546271000365 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 546271000366 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546271000367 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 546271000368 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 546271000369 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 546271000370 PilZ domain; Region: PilZ; cl01260 546271000371 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 546271000372 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 546271000373 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 546271000374 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 546271000375 DXD motif; other site 546271000376 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 546271000377 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 546271000378 active site 546271000379 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 546271000380 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 546271000381 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 546271000382 FeS/SAM binding site; other site 546271000383 hypothetical protein; Provisional; Region: PRK03881 546271000384 The N-terminal domain, an extradiol dioxygenase class III subunit B-like domain, of unknown proteins containing a C-terminal AMMECR1 domain; Region: ED_3B_N_AMMECR1; cd07951 546271000385 AMMECR1; Region: AMMECR1; cl00911 546271000386 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 546271000387 Aspartase; Region: Aspartase; cd01357 546271000388 active sites [active] 546271000389 tetramer interface [polypeptide binding]; other site 546271000390 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 546271000391 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 546271000392 FeS/SAM binding site; other site 546271000393 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 546271000394 Sulfatase; Region: Sulfatase; cl10460 546271000395 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 546271000396 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 546271000397 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 546271000398 BioY family; Region: BioY; cl00560 546271000399 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 546271000400 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: PLN02974 546271000401 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 546271000402 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 546271000403 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK07030 546271000404 inhibitor-cofactor binding pocket; inhibition site 546271000405 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546271000406 catalytic residue [active] 546271000407 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_man; cd00006 546271000408 active pocket/dimerization site; other site 546271000409 active site 546271000410 phosphorylation site [posttranslational modification] 546271000411 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 546271000412 6-phosphofructokinase; Provisional; Region: PRK03202 546271000413 active site 546271000414 ADP/pyrophosphate binding site [chemical binding]; other site 546271000415 dimerization interface [polypeptide binding]; other site 546271000416 allosteric effector site; other site 546271000417 fructose-1,6-bisphosphate binding site; other site 546271000418 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 546271000419 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546271000420 Predicted permeases [General function prediction only]; Region: RarD; COG2962 546271000421 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; cl01588 546271000422 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 546271000423 yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 546271000424 catalytic triad [active] 546271000425 catalytic triad [active] 546271000426 oxyanion hole [active] 546271000427 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 546271000428 HicB family; Region: HicB; pfam05534 546271000429 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 546271000430 Double zinc ribbon; Region: DZR; pfam12773 546271000431 hypothetical protein; Reviewed; Region: PRK11901 546271000432 Protein of unknown function (DUF805); Region: DUF805; cl01224 546271000433 Transposase IS200 like; Region: Y1_Tnp; cl00848 546271000434 Catalytic domain of Protein Kinases; Region: PKc; cd00180 546271000435 active site 546271000436 ATP binding site [chemical binding]; other site 546271000437 substrate binding site [chemical binding]; other site 546271000438 activation loop (A-loop); other site 546271000439 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 546271000440 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 546271000441 active site 546271000442 I-site; other site 546271000443 metal binding site [ion binding]; metal-binding site 546271000444 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 546271000445 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 546271000446 Membrane transport protein; Region: Mem_trans; cl09117 546271000447 mannose-6-phosphate isomerase; Provisional; Region: PRK15131; cl14659 546271000448 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 546271000449 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 546271000450 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 546271000451 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 546271000452 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...; Region: Sigma70_r4; cl01055 546271000453 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 546271000454 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 546271000455 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 546271000456 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 546271000457 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...; Region: NrdH; cd02976 546271000458 catalytic residues [active] 546271000459 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Validated; Region: PRK09369 546271000460 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 546271000461 hinge; other site 546271000462 active site 546271000463 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 546271000464 GTP cyclohydrolase I; Provisional; Region: PLN03044 546271000465 active site 546271000466 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 546271000467 dihydropteroate synthase; Region: DHPS; TIGR01496 546271000468 substrate binding pocket [chemical binding]; other site 546271000469 dimer interface [polypeptide binding]; other site 546271000470 inhibitor binding site; inhibition site 546271000471 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines...; Region: DHNA_DHNTPE; cd00534 546271000472 homooctamer interface [polypeptide binding]; other site 546271000473 active site 546271000474 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 546271000475 catalytic center binding site [active] 546271000476 ATP binding site [chemical binding]; other site 546271000477 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 546271000478 metal binding site [ion binding]; metal-binding site 546271000479 active site 546271000480 I-site; other site 546271000481 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 546271000482 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 546271000483 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 connected by an extended linker. The...; Region: HAMP; cl01054 546271000484 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 546271000485 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 546271000486 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 546271000487 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 546271000488 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 546271000489 Walker A motif; other site 546271000490 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 546271000491 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...; Region: TroA-like; cl00262 546271000492 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 546271000493 intersubunit interface [polypeptide binding]; other site 546271000494 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 546271000495 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-...; Region: ABC_Metallic_Cations; cd03235 546271000496 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...; Region: TM_ABC_iron-siderophores_like; cd06550 546271000497 ABC-ATPase subunit interface; other site 546271000498 dimer interface [polypeptide binding]; other site 546271000499 putative PBP binding regions; other site 546271000500 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...; Region: TM_ABC_iron-siderophores_like; cd06550 546271000501 ABC-ATPase subunit interface; other site 546271000502 dimer interface [polypeptide binding]; other site 546271000503 putative PBP binding regions; other site 546271000504 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 546271000505 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 546271000506 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 546271000507 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 546271000508 Gram-negative bacterial tonB protein; Region: TonB; cl10048 546271000509 Iron permease FTR1 family; Region: FTR1; cl00475 546271000510 Fe2+ transport protein; Region: Iron_transport; cl01377 546271000511 Predicted membrane protein [Function unknown]; Region: COG4393 546271000512 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 546271000513 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 546271000514 FtsX-like permease family; Region: FtsX; pfam02687 546271000515 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 546271000516 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 546271000517 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 546271000518 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 546271000519 Walker A/P-loop; other site 546271000520 ATP binding site [chemical binding]; other site 546271000521 Q-loop/lid; other site 546271000522 ABC transporter signature motif; other site 546271000523 Walker B; other site 546271000524 D-loop; other site 546271000525 H-loop/switch region; other site 546271000526 Major membrane immunogen, membrane-anchored lipoprotein [Function unknown]; Region: COG4939 546271000527 FMN-binding domain; Region: FMN_bind; cl01081 546271000528 ApbE family; Region: ApbE; cl00643 546271000529 N-Utilization Substance G (NusG) N terminal (NGN) insert and Lin0431 are part of DUF1312; Region: DUF1312; cd09846 546271000530 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; cl01973 546271000531 Cupin domain; Region: Cupin_2; cl09118 546271000532 enolase; Provisional; Region: eno; PRK00077 546271000533 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 546271000534 dimer interface [polypeptide binding]; other site 546271000535 metal binding site [ion binding]; metal-binding site 546271000536 substrate binding pocket [chemical binding]; other site 546271000537 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; cl00207 546271000538 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 546271000539 Zn2+ binding site [ion binding]; other site 546271000540 Mg2+ binding site [ion binding]; other site 546271000541 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 546271000542 Zn2+ binding site [ion binding]; other site 546271000543 Mg2+ binding site [ion binding]; other site 546271000544 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes...; Region: NADPH_oxidoreductase_1; cd02150 546271000545 putative FMN binding site [chemical binding]; other site 546271000546 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 546271000547 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 546271000548 non-specific DNA binding site [nucleotide binding]; other site 546271000549 salt bridge; other site 546271000550 sequence-specific DNA binding site [nucleotide binding]; other site 546271000551 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 546271000552 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 546271000553 N-terminal plug; other site 546271000554 ligand-binding site [chemical binding]; other site 546271000555 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...; Region: TroA-like; cl00262 546271000556 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 546271000557 intersubunit interface [polypeptide binding]; other site 546271000558 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 546271000559 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...; Region: TM_ABC_iron-siderophores_like; cd06550 546271000560 ABC-ATPase subunit interface; other site 546271000561 dimer interface [polypeptide binding]; other site 546271000562 putative PBP binding regions; other site 546271000563 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 546271000564 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 546271000565 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 546271000566 putative substrate translocation pore; other site 546271000567 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 546271000568 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 546271000569 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 546271000570 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 546271000571 YgiT-type zinc finger domain; Region: YgiT_finger; TIGR03831 546271000572 Esterase/lipase [General function prediction only]; Region: COG1647 546271000573 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 546271000574 CoenzymeA binding site [chemical binding]; other site 546271000575 subunit interaction site [polypeptide binding]; other site 546271000576 PHB binding site; other site 546271000577 ribonuclease R; Region: RNase_R; TIGR02063 546271000578 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 546271000579 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 546271000580 RNB domain; Region: RNB; pfam00773 546271000581 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an...; Region: S1_RNase_R; cd04471 546271000582 RNA binding site [nucleotide binding]; other site 546271000583 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 546271000584 SmpB-tmRNA interface; other site 546271000585 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 546271000586 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 546271000587 dimerization interface [polypeptide binding]; other site 546271000588 putative DNA binding site [nucleotide binding]; other site 546271000589 putative Zn2+ binding site [ion binding]; other site 546271000590 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 546271000591 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 546271000592 MatE; Region: MatE; pfam01554 546271000593 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 546271000594 NlpC/P60 family; Region: NLPC_P60; cl11438 546271000595 TIGR02452 family protein; Region: TIGR02452 546271000596 Uncharacterized protein conserved in bacteria (DUF2263); Region: DUF2263; pfam10021 546271000597 Domain of unknown function (DUF1413); Region: DUF1413; pfam07205 546271000598 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 546271000599 Protein of unknown function (DUF322); Region: DUF322; cl00574 546271000600 Beta-lactamase; Region: Beta-lactamase; cl01009 546271000601 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 546271000602 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 546271000603 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 546271000604 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546271000605 homodimer interface [polypeptide binding]; other site 546271000606 catalytic residue [active] 546271000607 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 546271000608 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 546271000609 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 546271000610 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 546271000611 FIST N domain; Region: FIST; pfam08495 546271000612 FIST C domain; Region: FIST_C; pfam10442 546271000613 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 546271000614 AzlC protein; Region: AzlC; cl00570 546271000615 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 546271000616 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 546271000617 catalytic residues [active] 546271000618 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeD; cd03379 546271000619 active site clefts [active] 546271000620 zinc binding site [ion binding]; other site 546271000621 dimer interface [polypeptide binding]; other site 546271000622 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 546271000623 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 546271000624 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; cl14056 546271000625 Phd_YefM; Region: PhdYeFM; cl09153 546271000626 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 546271000627 putative ArsC-like catalytic residues; other site 546271000628 putative TRX-like catalytic residues [active] 546271000629 flagellar operon protein TIGR03826; Region: YvyF 546271000630 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 546271000631 FlgN protein; Region: FlgN; cl09176 546271000632 FlgN protein; Region: FlgN; cl09176 546271000633 Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256 546271000634 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 546271000635 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 546271000636 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 546271000637 FliW protein; Region: FliW; cl00740 546271000638 Global regulator protein family; Region: CsrA; cl00670 546271000639 FlaG protein; Region: FlaG; cl00591 546271000640 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 546271000641 Flagellar protein FliS; Region: FliS; cl00654 546271000642 flagellin; Provisional; Region: PRK12806 546271000643 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 546271000644 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 546271000645 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 546271000646 active site 546271000647 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 546271000648 active site 546271000649 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 546271000650 putative metal binding site [ion binding]; other site 546271000651 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 546271000652 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 546271000653 active site 546271000654 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 546271000655 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 546271000656 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 546271000657 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 546271000658 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 546271000659 invasion protein regulator; Provisional; Region: PRK12370 546271000660 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; cl12011 546271000661 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 546271000662 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 546271000663 active site 546271000664 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 546271000665 active site 546271000666 metal binding site [ion binding]; metal-binding site 546271000667 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 546271000668 active site 546271000669 nucleotide binding site [chemical binding]; other site 546271000670 HIGH motif; other site 546271000671 KMSKS motif; other site 546271000672 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 546271000673 tetramer interface [polypeptide binding]; other site 546271000674 active site 546271000675 Mg2+/Mn2+ binding site [ion binding]; other site 546271000676 Sulfatase; Region: Sulfatase; cl10460 546271000677 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 546271000678 Sulfatase; Region: Sulfatase; cl10460 546271000679 Sulfatase; Region: Sulfatase; cl10460 546271000680 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 546271000681 Sulfatase; Region: Sulfatase; cl10460 546271000682 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 546271000683 active site 546271000684 lipopolysaccharide biosynthesis protein RfbH; Provisional; Region: PRK15407 546271000685 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 546271000686 inhibitor-cofactor binding pocket; inhibition site 546271000687 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546271000688 catalytic residue [active] 546271000689 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 546271000690 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 546271000691 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 546271000692 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 546271000693 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 546271000694 NAD binding site [chemical binding]; other site 546271000695 homotetramer interface [polypeptide binding]; other site 546271000696 homodimer interface [polypeptide binding]; other site 546271000697 substrate binding site [chemical binding]; other site 546271000698 active site 546271000699 Flagellin N-methylase; Region: FliB; cl00497 546271000700 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 546271000701 active site 546271000702 dimer interface [polypeptide binding]; other site 546271000703 Ribonucleotide reductase, barrel domain; Region: Ribonuc_red_lgC; pfam02867 546271000704 effector binding site; other site 546271000705 TSCPD domain; Region: TSCPD; cl14834 546271000706 Uncharacterised BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 546271000707 Autotransporter beta-domain; Region: Autotransporter; cl02365 546271000708 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 546271000709 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 546271000710 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 546271000711 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271000712 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 546271000713 ABC transporter; Region: ABC_tran_2; pfam12848 546271000714 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 546271000715 RecD/TraA family; Region: recD_rel; TIGR01448 546271000716 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 546271000717 UvrD/REP helicase; Region: UvrD-helicase; cl14126 546271000718 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 546271000719 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 546271000720 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 546271000721 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 546271000722 active site 546271000723 dimer interface [polypeptide binding]; other site 546271000724 motif 1; other site 546271000725 motif 2; other site 546271000726 motif 3; other site 546271000727 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 546271000728 anticodon binding site; other site 546271000729 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; cl12126 546271000730 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 546271000731 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 546271000732 inhibitor-cofactor binding pocket; inhibition site 546271000733 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546271000734 catalytic residue [active] 546271000735 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 546271000736 dimer interface [polypeptide binding]; other site 546271000737 active site 546271000738 Schiff base residues; other site 546271000739 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 546271000740 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations...; Region: HemD; cd06578 546271000741 active site 546271000742 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 546271000743 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 546271000744 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 546271000745 domain interfaces; other site 546271000746 active site 546271000747 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 546271000748 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 546271000749 tRNA; other site 546271000750 putative tRNA binding site [nucleotide binding]; other site 546271000751 putative NADP binding site [chemical binding]; other site 546271000752 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 546271000753 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 546271000754 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 546271000755 glutamate dehydrogenase; Provisional; Region: PRK09414 546271000756 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 546271000757 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 546271000758 NAD(P) binding site [chemical binding]; other site 546271000759 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 546271000760 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 546271000761 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 546271000762 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 546271000763 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 546271000764 Sulfate transporter family; Region: Sulfate_transp; cl00967 546271000765 Permease family; Region: Xan_ur_permease; pfam00860 546271000766 Protein of unknown function, DUF488; Region: DUF488; cl01246 546271000767 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 546271000768 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 546271000769 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 546271000770 catalytic residue [active] 546271000771 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 546271000772 putative enoyl-(acyl-carrier-protein) reductase II; Region: enACPred_II; TIGR03151 546271000773 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin...; Region: NPD_like; cd04730 546271000774 FMN binding site [chemical binding]; other site 546271000775 substrate binding site [chemical binding]; other site 546271000776 putative catalytic residue [active] 546271000777 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 546271000778 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 546271000779 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 546271000780 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 546271000781 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 546271000782 ADP binding site [chemical binding]; other site 546271000783 phosphagen binding site; other site 546271000784 substrate specificity loop; other site 546271000785 Clp protease ATP binding subunit; Region: clpC; CHL00095 546271000786 Clp amino terminal domain; Region: Clp_N; pfam02861 546271000787 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...; Region: AAA; cd00009 546271000788 Walker A motif; other site 546271000789 ATP binding site [chemical binding]; other site 546271000790 Walker B motif; other site 546271000791 arginine finger; other site 546271000792 UvrB/uvrC motif; Region: UVR; pfam02151 546271000793 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...; Region: AAA; cd00009 546271000794 Walker A motif; other site 546271000795 ATP binding site [chemical binding]; other site 546271000796 Walker B motif; other site 546271000797 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 546271000798 DNA repair protein RadA; Provisional; Region: PRK11823 546271000799 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 546271000800 Walker A motif/ATP binding site; other site 546271000801 ATP binding site [chemical binding]; other site 546271000802 Walker B motif; other site 546271000803 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 546271000804 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 546271000805 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 546271000806 tetramerization interface [polypeptide binding]; other site 546271000807 active site 546271000808 pantoate--beta-alanine ligase; Region: panC; TIGR00018 546271000809 Pantoate-beta-alanine ligase; Region: PanC; cd00560 546271000810 active site 546271000811 ATP-binding site [chemical binding]; other site 546271000812 pantoate-binding site; other site 546271000813 HXXH motif; other site 546271000814 Membrane transport protein; Region: Mem_trans; cl09117 546271000815 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 546271000816 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase, 2-...; Region: ribokinase_pfkB_like; cl00192 546271000817 substrate binding site [chemical binding]; other site 546271000818 ATP binding site [chemical binding]; other site 546271000819 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 546271000820 active site 546271000821 nucleotide binding site [chemical binding]; other site 546271000822 HIGH motif; other site 546271000823 KMSKS motif; other site 546271000824 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 546271000825 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 546271000826 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 546271000827 putative active site [active] 546271000828 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 546271000829 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 546271000830 putative active site [active] 546271000831 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 546271000832 putative ribose interaction site [chemical binding]; other site 546271000833 putative ADP binding site [chemical binding]; other site 546271000834 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 546271000835 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 546271000836 NADP binding site [chemical binding]; other site 546271000837 homopentamer interface [polypeptide binding]; other site 546271000838 substrate binding site [chemical binding]; other site 546271000839 active site 546271000840 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 546271000841 active site 546271000842 motif I; other site 546271000843 motif II; other site 546271000844 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 546271000845 putative ADP-binding pocket [chemical binding]; other site 546271000846 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 546271000847 Glycosyl transferases group 1; Region: Glycos_transf_1; cl12012 546271000848 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 546271000849 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 546271000850 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 546271000851 Sulfatase; Region: Sulfatase; cl10460 546271000852 Glycosyltransferase family 17; Region: Glyco_transf_17; pfam04724 546271000853 Protein of unknown function (DUF535); Region: DUF535; cl01128 546271000854 Predicted ATPase [General function prediction only]; Region: COG4637 546271000855 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271000856 ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The...; Region: ABC_ATPase; cd00267 546271000857 Q-loop/lid; other site 546271000858 ABC transporter signature motif; other site 546271000859 Walker B; other site 546271000860 D-loop; other site 546271000861 H-loop/switch region; other site 546271000862 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl08495 546271000863 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 546271000864 Divergent AAA domain; Region: AAA_4; pfam04326 546271000865 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 546271000866 active site 546271000867 NTP binding site [chemical binding]; other site 546271000868 antibiotic binding site [chemical binding]; other site 546271000869 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl08495 546271000870 Fic family protein [Function unknown]; Region: COG3177 546271000871 Fic/DOC family; Region: Fic; cl00960 546271000872 Flavin Reductases; Region: FlaRed; cl00801 546271000873 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 546271000874 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 546271000875 ligand binding site [chemical binding]; other site 546271000876 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 546271000877 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 546271000878 transmembrane helices; other site 546271000879 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 546271000880 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 546271000881 active site 546271000882 dimer interface [polypeptide binding]; other site 546271000883 hypothetical protein; Reviewed; Region: PRK00024 546271000884 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 546271000885 MPN+ (JAMM) motif; other site 546271000886 Zinc-binding site [ion binding]; other site 546271000887 rod shape-determining protein MreB; Provisional; Region: PRK13927 546271000888 Cell division protein FtsA; Region: FtsA; cl11496 546271000889 rod shape-determining protein MreC; Region: MreC; pfam04085 546271000890 rod shape-determining protein MreD; Region: MreD; cl01087 546271000891 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 546271000892 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 546271000893 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 546271000894 septum formation inhibitor; Reviewed; Region: minC; PRK00513 546271000895 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 546271000896 septum site-determining protein MinD; Region: minD_bact; TIGR01968 546271000897 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a...; Region: MinD; cd02036 546271000898 Switch I; other site 546271000899 Switch II; other site 546271000900 Septum formation topological specificity factor MinE; Region: MinE; cl00538 546271000901 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 546271000902 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 546271000903 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 546271000904 B12 binding site [chemical binding]; other site 546271000905 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; cl14056 546271000906 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 546271000907 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 546271000908 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 546271000909 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 546271000910 homodimer interface [polypeptide binding]; other site 546271000911 oligonucleotide binding site [chemical binding]; other site 546271000912 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK08010 546271000913 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 546271000914 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 546271000915 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 546271000916 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 546271000917 flagellin; Provisional; Region: PRK12804 546271000918 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 546271000919 haemagglutination activity domain; Region: Haemagg_act; cl05436 546271000920 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 546271000921 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 546271000922 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 546271000923 Fic/DOC family; Region: Fic; cl00960 546271000924 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 546271000925 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 546271000926 NAD(P) binding site [chemical binding]; other site 546271000927 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 546271000928 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 546271000929 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 546271000930 proposed active site lysine [active] 546271000931 conserved cys residue [active] 546271000932 biotin synthase; Provisional; Region: PRK07094 546271000933 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 546271000934 FeS/SAM binding site; other site 546271000935 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 546271000936 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 546271000937 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 546271000938 PYR/PP interface [polypeptide binding]; other site 546271000939 dimer interface [polypeptide binding]; other site 546271000940 TPP binding site [chemical binding]; other site 546271000941 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 546271000942 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 546271000943 TPP-binding site [chemical binding]; other site 546271000944 dimer interface [polypeptide binding]; other site 546271000945 Sulfatase; Region: Sulfatase; cl10460 546271000946 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 546271000947 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 546271000948 putative valine binding site [chemical binding]; other site 546271000949 dimer interface [polypeptide binding]; other site 546271000950 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 546271000951 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 546271000952 Beta-lactamase; Region: Beta-lactamase; cl01009 546271000953 iron-only hydrogenase maturation rSAM protein HydG; Region: rSAM_HydG; TIGR03955 546271000954 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 546271000955 FeS/SAM binding site; other site 546271000956 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 546271000957 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 546271000958 RelB antitoxin; Region: RelB; cl01171 546271000959 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 546271000960 non-specific DNA binding site [nucleotide binding]; other site 546271000961 salt bridge; other site 546271000962 sequence-specific DNA binding site [nucleotide binding]; other site 546271000963 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 546271000964 thiS-thiF/thiG interaction site; other site 546271000965 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; cl09108 546271000966 phosphate binding site [ion binding]; other site 546271000967 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 546271000968 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; cl14056 546271000969 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 546271000970 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5- (beta-...; Region: TMP_TenI; cd00564 546271000971 thiamine phosphate binding site [chemical binding]; other site 546271000972 active site 546271000973 pyrophosphate binding site [ion binding]; other site 546271000974 fumarate hydratase; Reviewed; Region: fumC; PRK00485 546271000975 Class II fumarases; Region: Fumarase_classII; cd01362 546271000976 active site 546271000977 tetramer interface [polypeptide binding]; other site 546271000978 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 546271000979 S-adenosylmethionine binding site [chemical binding]; other site 546271000980 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 546271000981 Cache domain; Region: Cache_1; pfam02743 546271000982 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 connected by an extended linker. The...; Region: HAMP; cl01054 546271000983 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 546271000984 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or...; Region: Nudix_Hydrolase; cl00447 546271000985 nudix motif; other site 546271000986 Cache domain; Region: Cache_1; pfam02743 546271000987 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 546271000988 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 connected by an extended linker. The...; Region: HAMP; cl01054 546271000989 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 546271000990 Cache domain; Region: Cache_1; pfam02743 546271000991 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 connected by an extended linker. The...; Region: HAMP; cl01054 546271000992 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 546271000993 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 546271000994 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 546271000995 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 546271000996 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 546271000997 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 546271000998 active site 546271000999 dimer interface [polypeptide binding]; other site 546271001000 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 546271001001 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 546271001002 active site 546271001003 motif I; other site 546271001004 motif II; other site 546271001005 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; cl11391 546271001006 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; cl11391 546271001007 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 546271001008 P-loop ATPase protein family; Region: ATP_bind_2; cl10035 546271001009 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 546271001010 Uncharacterised protein family UPF0052; Region: UPF0052; pfam01933 546271001011 phosphate binding site [ion binding]; other site 546271001012 putative substrate binding pocket [chemical binding]; other site 546271001013 dimer interface [polypeptide binding]; other site 546271001014 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 546271001015 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 546271001016 outer membrane N-deacetylase; Provisional; Region: hmsF; PRK14581 546271001017 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 546271001018 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 546271001019 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 546271001020 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 546271001021 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 546271001022 Walker A/P-loop; other site 546271001023 ATP binding site [chemical binding]; other site 546271001024 Q-loop/lid; other site 546271001025 ABC transporter signature motif; other site 546271001026 Walker B; other site 546271001027 D-loop; other site 546271001028 H-loop/switch region; other site 546271001029 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 546271001030 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E...; Region: ABC_Mj1267_LivG_branched; cd03219 546271001031 Walker A/P-loop; other site 546271001032 ATP binding site [chemical binding]; other site 546271001033 Q-loop/lid; other site 546271001034 ABC transporter signature motif; other site 546271001035 Walker B; other site 546271001036 D-loop; other site 546271001037 H-loop/switch region; other site 546271001038 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 546271001039 TM-ABC transporter signature motif; other site 546271001040 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 546271001041 TM-ABC transporter signature motif; other site 546271001042 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 546271001043 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 546271001044 putative ligand binding site [chemical binding]; other site 546271001045 PQ loop repeat; Region: PQ-loop; cl12056 546271001046 TOBE domain; Region: TOBE_2; cl01440 546271001047 Predicted transcriptional regulator [Transcription]; Region: COG1959 546271001048 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 546271001049 cysteine synthases; Region: cysKM; TIGR01136 546271001050 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 546271001051 dimer interface [polypeptide binding]; other site 546271001052 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546271001053 catalytic residue [active] 546271001054 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 546271001055 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 546271001056 N-terminal plug; other site 546271001057 ligand-binding site [chemical binding]; other site 546271001058 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...; Region: TroA-like; cl00262 546271001059 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 546271001060 intersubunit interface [polypeptide binding]; other site 546271001061 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...; Region: TM_ABC_iron-siderophores_like; cd06550 546271001062 ABC-ATPase subunit interface; other site 546271001063 dimer interface [polypeptide binding]; other site 546271001064 putative PBP binding regions; other site 546271001065 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 546271001066 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 546271001067 Walker A/P-loop; other site 546271001068 ATP binding site [chemical binding]; other site 546271001069 Q-loop/lid; other site 546271001070 ABC transporter signature motif; other site 546271001071 Walker B; other site 546271001072 D-loop; other site 546271001073 H-loop/switch region; other site 546271001074 prephenate dehydratase; Provisional; Region: PRK11898 546271001075 Prephenate dehydratase; Region: PDT; pfam00800 546271001076 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 546271001077 putative L-Phe binding site [chemical binding]; other site 546271001078 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 546271001079 NeuB family; Region: NeuB; cl00496 546271001080 Cache domain; Region: Cache_1; pfam02743 546271001081 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 connected by an extended linker. The...; Region: HAMP; cl01054 546271001082 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 546271001083 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 546271001084 Cache domain; Region: Cache_1; pfam02743 546271001085 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 546271001086 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 546271001087 Cache domain; Region: Cache_1; pfam02743 546271001088 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 connected by an extended linker. The...; Region: HAMP; cl01054 546271001089 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 546271001090 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 546271001091 Cache domain; Region: Cache_1; pfam02743 546271001092 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 connected by an extended linker. The...; Region: HAMP; cl01054 546271001093 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 546271001094 Cache domain; Region: Cache_1; pfam02743 546271001095 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 546271001096 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 546271001097 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 546271001098 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 546271001099 HIGH motif; other site 546271001100 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 546271001101 active site 546271001102 KMSKS motif; other site 546271001103 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 546271001104 tRNA binding surface [nucleotide binding]; other site 546271001105 anticodon binding site; other site 546271001106 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 546271001107 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 546271001108 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 546271001109 O-Antigen ligase; Region: Wzy_C; cl04850 546271001110 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 546271001111 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 546271001112 Coenzyme A transferase; Region: CoA_trans; cl00773 546271001113 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, isobutyryl-CoA mutase (ICM)-like subfamily; contains archaeal and bacterial proteins similar to the large subunit of Streptomyces cinnamonensis coenzyme B12-dependent ICM. ICM...; Region: MM_CoA_mutase_ICM_like; cd03680 546271001114 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen...; Region: MM_CoA_mut_B12_BD; cd02071 546271001115 B12 binding site [chemical binding]; other site 546271001116 cobalt ligand [ion binding]; other site 546271001117 ArgK protein; Region: ArgK; pfam03308 546271001118 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 546271001119 Walker A; other site 546271001120 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 546271001121 dimer interface [polypeptide binding]; other site 546271001122 substrate binding site [chemical binding]; other site 546271001123 metal binding site [ion binding]; metal-binding site 546271001124 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 546271001125 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 546271001126 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 546271001127 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 546271001128 carboxyltransferase (CT) interaction site; other site 546271001129 biotinylation site [posttranslational modification]; other site 546271001130 Nuclease-related domain; Region: NERD; pfam08378 546271001131 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 546271001132 Sel1 repeat; Region: Sel1; cl02723 546271001133 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 546271001134 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 546271001135 rRNA interaction site [nucleotide binding]; other site 546271001136 S8 interaction site; other site 546271001137 putative laminin-1 binding site; other site 546271001138 elongation factor Ts; Provisional; Region: tsf; PRK09377 546271001139 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 546271001140 Elongation factor TS; Region: EF_TS; pfam00889 546271001141 Elongation factor TS; Region: EF_TS; pfam00889 546271001142 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control...; Region: AAK_UMPK-PyrH-Ec; cd04254 546271001143 putative nucleotide binding site [chemical binding]; other site 546271001144 uridine monophosphate binding site [chemical binding]; other site 546271001145 homohexameric interface [polypeptide binding]; other site 546271001146 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 round of...; Region: RRF; cd00520 546271001147 hinge region; other site 546271001148 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 546271001149 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 alpha-; Region: HCP_like; cl14655 546271001150 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 546271001151 amidophosphoribosyltransferase; Provisional; Region: PRK05793 546271001152 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 546271001153 active site 546271001154 tetramer interface [polypeptide binding]; other site 546271001155 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 546271001156 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 546271001157 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 546271001158 Surface antigen; Region: Bac_surface_Ag; cl03097 546271001159 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 546271001160 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 546271001161 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 546271001162 active site 546271001163 HIGH motif; other site 546271001164 KMSKS motif; other site 546271001165 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 546271001166 tRNA binding surface [nucleotide binding]; other site 546271001167 anticodon binding site; other site 546271001168 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 546271001169 dimer interface [polypeptide binding]; other site 546271001170 putative tRNA-binding site [nucleotide binding]; other site 546271001171 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 546271001172 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 546271001173 active site 546271001174 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 546271001175 3D domain; Region: 3D; cl01439 546271001176 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 546271001177 Amino acid permease; Region: AA_permease; pfam00324 546271001178 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 546271001179 trimer interface [polypeptide binding]; other site 546271001180 active site 546271001181 substrate binding site [chemical binding]; other site 546271001182 CoA binding site [chemical binding]; other site 546271001183 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 546271001184 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 546271001185 active site 546271001186 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 6-...; Region: LbH_MAT_like; cd04647 546271001187 trimer interface [polypeptide binding]; other site 546271001188 active site 546271001189 substrate binding site [chemical binding]; other site 546271001190 CoA binding site [chemical binding]; other site 546271001191 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 546271001192 active site 546271001193 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 546271001194 Probable Catalytic site [active] 546271001195 metal binding site [ion binding]; metal-binding site 546271001196 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 546271001197 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 6-...; Region: LbH_MAT_like; cd04647 546271001198 trimer interface [polypeptide binding]; other site 546271001199 active site 546271001200 substrate binding site [chemical binding]; other site 546271001201 CoA binding site [chemical binding]; other site 546271001202 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 546271001203 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 546271001204 active site 546271001205 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 546271001206 substrate binding site [chemical binding]; other site 546271001207 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 6-...; Region: LbH_MAT_like; cd04647 546271001208 trimer interface [polypeptide binding]; other site 546271001209 active site 546271001210 substrate binding site [chemical binding]; other site 546271001211 CoA binding site [chemical binding]; other site 546271001212 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 546271001213 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 546271001214 active site 546271001215 Predicted methyltransferase [General function prediction only]; Region: COG2520 546271001216 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; cl12011 546271001217 4-hydroxy-2-oxovalerate aldolase-like, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA_like; cd07944 546271001218 active site 546271001219 catalytic residues [active] 546271001220 metal binding site [ion binding]; metal-binding site 546271001221 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 546271001222 classical (c) SDRs; Region: SDR_c; cd05233 546271001223 NAD(P) binding site [chemical binding]; other site 546271001224 active site 546271001225 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 546271001226 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 546271001227 PYR/PP interface [polypeptide binding]; other site 546271001228 dimer interface [polypeptide binding]; other site 546271001229 TPP binding site [chemical binding]; other site 546271001230 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 546271001231 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...; Region: TPP_enzymes; cd00568 546271001232 TPP-binding site [chemical binding]; other site 546271001233 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 546271001234 active site 546271001235 metal binding site [ion binding]; metal-binding site 546271001236 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 546271001237 active site 546271001238 NAD binding site [chemical binding]; other site 546271001239 metal binding site [ion binding]; metal-binding site 546271001240 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 546271001241 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 546271001242 FeS/SAM binding site; other site 546271001243 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 546271001244 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546271001245 NAD(P) binding site [chemical binding]; other site 546271001246 active site 546271001247 rSAM-modified six-cysteine peptide SCIFF; Region: six_Cys_in_45; TIGR03973 546271001248 six-Cys-in-45 modification radical SAM protein; Region: rSAM_six_Cys; TIGR03974 546271001249 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 546271001250 FeS/SAM binding site; other site 546271001251 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 546271001252 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 546271001253 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 546271001254 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 546271001255 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 546271001256 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 546271001257 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 546271001258 gluconate transporter; Region: gntP; TIGR00791 546271001259 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; cl09110 546271001260 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-...; Region: rubredoxin_SM; cd00729 546271001261 iron binding site [ion binding]; other site 546271001262 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 546271001263 diiron binding motif [ion binding]; other site 546271001264 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 546271001265 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 546271001266 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 546271001267 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 546271001268 Coenzyme A binding pocket [chemical binding]; other site 546271001269 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 546271001270 UGMP family protein; Validated; Region: PRK09604 546271001271 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 546271001272 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 546271001273 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 546271001274 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 546271001275 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 546271001276 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 546271001277 catalytic residue [active] 546271001278 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; cl12011 546271001279 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 546271001280 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 546271001281 PYR/PP interface [polypeptide binding]; other site 546271001282 dimer interface [polypeptide binding]; other site 546271001283 TPP binding site [chemical binding]; other site 546271001284 TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as bialaphos tripeptide in Streptomyces hygroscopicus...; Region: TPP_PpyrDC; cd03371 546271001285 TPP-binding site; other site 546271001286 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 546271001287 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 546271001288 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; cl11391 546271001289 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 546271001290 FeoA domain; Region: FeoA; cl00838 546271001291 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 546271001292 Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this...; Region: FeoB; cd01879 546271001293 G1 box; other site 546271001294 GTP/Mg2+ binding site [chemical binding]; other site 546271001295 Switch I region; other site 546271001296 G2 box; other site 546271001297 G3 box; other site 546271001298 Switch II region; other site 546271001299 G4 box; other site 546271001300 G5 box; other site 546271001301 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...; Region: Ribosomal_L29_HIP; cl09943 546271001302 Nucleoside recognition; Region: Gate; cl00486 546271001303 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 546271001304 Nucleoside recognition; Region: Gate; cl00486 546271001305 Leucine carboxyl methyltransferase; Region: LCM; cl01306 546271001306 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 546271001307 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...; Region: AAA; cd00009 546271001308 Walker A motif; other site 546271001309 ATP binding site [chemical binding]; other site 546271001310 Walker B motif; other site 546271001311 arginine finger; other site 546271001312 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 546271001313 active site 546271001314 catalytic triad [active] 546271001315 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 546271001316 Cell division protein FtsA; Region: FtsA; cl11496 546271001317 Cell division protein FtsA; Region: FtsA; cl11496 546271001318 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 546271001319 DAK2 domain; Region: Dak2; cl03685 546271001320 Protein of unknown function (DUF441); Region: DUF441; cl01041 546271001321 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 546271001322 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...; Region: PBPb; cd00134 546271001323 substrate binding pocket [chemical binding]; other site 546271001324 membrane-bound complex binding site; other site 546271001325 hinge residues; other site 546271001326 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 546271001327 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...; Region: TM_PBP2; cd06261 546271001328 dimer interface [polypeptide binding]; other site 546271001329 conserved gate region; other site 546271001330 putative PBP binding loops; other site 546271001331 ABC-ATPase subunit interface; other site 546271001332 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 546271001333 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 546271001334 Walker A/P-loop; other site 546271001335 ATP binding site [chemical binding]; other site 546271001336 Q-loop/lid; other site 546271001337 ABC transporter signature motif; other site 546271001338 Walker B; other site 546271001339 D-loop; other site 546271001340 H-loop/switch region; other site 546271001341 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 546271001342 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 546271001343 Catalytic site [active] 546271001344 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 546271001345 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 process of...; Region: Lipase_3; cd00519 546271001346 active site flap/lid [active] 546271001347 nucleophilic elbow; other site 546271001348 catalytic triad [active] 546271001349 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 546271001350 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 546271001351 S-adenosylmethionine binding site [chemical binding]; other site 546271001352 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 546271001353 radical SAM methylthiotransferase, MiaB/RimO family; Region: TIGR00089 546271001354 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 546271001355 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; cl14056 546271001356 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 546271001357 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 546271001358 active site 546271001359 phosphorylation site [posttranslational modification] 546271001360 intermolecular recognition site; other site 546271001361 dimerization interface [polypeptide binding]; other site 546271001362 LytTr DNA-binding domain; Region: LytTR; cl04498 546271001363 Ion transport protein; Region: Ion_trans; pfam00520 546271001364 haemagglutination activity domain; Region: Haemagg_act; cl05436 546271001365 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 546271001366 Surface antigen; Region: Bac_surface_Ag; cl03097 546271001367 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 546271001368 RelB antitoxin; Region: RelB; cl01171 546271001369 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 546271001370 nucleotide binding site/active site [active] 546271001371 HIT family signature motif; other site 546271001372 catalytic residue [active] 546271001373 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 546271001374 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 546271001375 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 546271001376 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 546271001377 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 546271001378 non-specific DNA binding site [nucleotide binding]; other site 546271001379 salt bridge; other site 546271001380 sequence-specific DNA binding site [nucleotide binding]; other site 546271001381 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 546271001382 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These...; Region: MopB_3; cd02766 546271001383 putative [4Fe-4S] binding site [ion binding]; other site 546271001384 putative molybdopterin cofactor binding site [chemical binding]; other site 546271001385 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-; Region: MopB_CT; cl09929 546271001386 molybdopterin cofactor binding site; other site 546271001387 MutS-like homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-...; Region: ABC_MutS-like; cd03283 546271001388 Walker A/P-loop; other site 546271001389 ATP binding site [chemical binding]; other site 546271001390 Q-loop/lid; other site 546271001391 ABC transporter signature motif; other site 546271001392 Walker B; other site 546271001393 D-loop; other site 546271001394 H-loop/switch region; other site 546271001395 RelB antitoxin; Region: RelB; cl01171 546271001396 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 546271001397 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 546271001398 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271001399 Walker A/P-loop; other site 546271001400 ATP binding site [chemical binding]; other site 546271001401 Q-loop/lid; other site 546271001402 ABC transporter signature motif; other site 546271001403 Walker B; other site 546271001404 D-loop; other site 546271001405 CcmB protein; Region: CcmB; cl01016 546271001406 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 546271001407 CcmE; Region: CcmE; cl00994 546271001408 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 546271001409 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 546271001410 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl09485 546271001411 Cytochrome c552; Region: Cytochrom_C552; pfam02335 546271001412 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; cl10556 546271001413 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 546271001414 Cache domain; Region: Cache_2; pfam08269 546271001415 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 connected by an extended linker. The...; Region: HAMP; cl01054 546271001416 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 546271001417 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 546271001418 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 546271001419 homodimer interface [polypeptide binding]; other site 546271001420 substrate-cofactor binding pocket; other site 546271001421 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546271001422 catalytic residue [active] 546271001423 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 546271001424 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546271001425 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 546271001426 Glycerate kinase family; Region: Gly_kinase; cl00841 546271001427 Fic family protein [Function unknown]; Region: COG3177 546271001428 Fic/DOC family; Region: Fic; cl00960 546271001429 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 546271001430 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 546271001431 RNA/DNA hybrid binding site [nucleotide binding]; other site 546271001432 active site 546271001433 Protein of unknown function (DUF805); Region: DUF805; cl01224 546271001434 exopolyphosphatase; Region: exo_poly_only; TIGR03706 546271001435 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 546271001436 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 546271001437 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 546271001438 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 546271001439 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 546271001440 UvrB/uvrC motif; Region: UVR; pfam02151 546271001441 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 546271001442 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 546271001443 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 546271001444 recombinase A; Provisional; Region: recA; PRK09354 546271001445 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 546271001446 hexamer interface [polypeptide binding]; other site 546271001447 Walker A motif; other site 546271001448 ATP binding site [chemical binding]; other site 546271001449 Walker B motif; other site 546271001450 RecX family; Region: RecX; cl00936 546271001451 GMP synthase; Reviewed; Region: guaA; PRK00074 546271001452 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 546271001453 AMP/PPi binding site [chemical binding]; other site 546271001454 candidate oxyanion hole; other site 546271001455 catalytic triad [active] 546271001456 potential glutamine specificity residues [chemical binding]; other site 546271001457 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 546271001458 ATP Binding subdomain [chemical binding]; other site 546271001459 Ligand Binding sites [chemical binding]; other site 546271001460 Dimerization subdomain; other site 546271001461 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 546271001462 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 546271001463 DpnII restriction endonuclease; Region: DpnII; pfam04556 546271001464 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 546271001465 S-adenosylmethionine binding site [chemical binding]; other site 546271001466 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; cl12011 546271001467 Predicted ATPase [General function prediction only]; Region: COG4637 546271001468 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 546271001469 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 546271001470 Integrase core domain; Region: rve; cl01316 546271001471 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 546271001472 Transposase, Mutator family; Region: Transposase_mut; pfam00872 546271001473 MULE transposase domain; Region: MULE; pfam10551 546271001474 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 546271001475 putative transposase OrfB; Reviewed; Region: PHA02517 546271001476 Integrase core domain; Region: rve; cl01316 546271001477 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 546271001478 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 546271001479 DNA binding site [nucleotide binding] 546271001480 active site 546271001481 Domain of unknown function (DUF2828); Region: DUF2828; pfam11443 546271001482 Transposase IS200 like; Region: Y1_Tnp; cl00848 546271001483 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 546271001484 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271001485 Walker A motif; other site 546271001486 ATP binding site [chemical binding]; other site 546271001487 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271001488 Walker B motif; other site 546271001489 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 546271001490 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial...; Region: VirB11-like_ATPase; cd01130 546271001491 ATP binding site [chemical binding]; other site 546271001492 Walker A motif; other site 546271001493 hexamer interface [polypeptide binding]; other site 546271001494 Walker B motif; other site 546271001495 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 546271001496 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 546271001497 VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 546271001498 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271001499 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl14888 546271001500 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 546271001501 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 546271001502 Peptidase family M23; Region: Peptidase_M23; pfam01551 546271001503 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 546271001504 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 catalyze...; Region: LT_GEWL; cd00254 546271001505 N-acetyl-D-glucosamine binding site [chemical binding]; other site 546271001506 catalytic residue [active] 546271001507 Peptidase S26; Region: Peptidase_S26; pfam10502 546271001508 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88)...; Region: Peptidase_S24_S26; cl10465 546271001509 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 546271001510 non-specific DNA binding site [nucleotide binding]; other site 546271001511 salt bridge; other site 546271001512 sequence-specific DNA binding site [nucleotide binding]; other site 546271001513 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 546271001514 non-specific DNA binding site [nucleotide binding]; other site 546271001515 salt bridge; other site 546271001516 sequence-specific DNA binding site [nucleotide binding]; other site 546271001517 DNA topoisomerase III; Provisional; Region: PRK07726 546271001518 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by:...; Region: TOPRIM_TopoIA_TopoIII; cd03362 546271001519 active site 546271001520 putative interdomain interaction site [polypeptide binding]; other site 546271001521 putative metal-binding site [ion binding]; other site 546271001522 putative nucleotide binding site [chemical binding]; other site 546271001523 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...; Region: TOP1Ac; cd00186 546271001524 domain I; other site 546271001525 DNA binding groove [nucleotide binding] 546271001526 phosphate binding site [ion binding]; other site 546271001527 domain II; other site 546271001528 domain III; other site 546271001529 nucleotide binding site [chemical binding]; other site 546271001530 catalytic site [active] 546271001531 domain IV; other site 546271001532 Fic/DOC family; Region: Fic; cl00960 546271001533 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 546271001534 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 546271001535 catalytic residues [active] 546271001536 catalytic nucleophile [active] 546271001537 Presynaptic Site I dimer interface [polypeptide binding]; other site 546271001538 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 546271001539 Synaptic Flat tetramer interface [polypeptide binding]; other site 546271001540 Synaptic Site I dimer interface [polypeptide binding]; other site 546271001541 DNA binding site [nucleotide binding] 546271001542 Domain of unknown function (DUF1413); Region: DUF1413; pfam07205 546271001543 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 546271001544 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 546271001545 DNA binding site [nucleotide binding] 546271001546 active site 546271001547 hybrid cluster protein; Provisional; Region: PRK05290 546271001548 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 alpha-; Region: HCP_like; cl14655 546271001549 ACS interaction site; other site 546271001550 CODH interaction site; other site 546271001551 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 546271001552 hybrid metal cluster; other site 546271001553 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl11605 546271001554 octamerization interface [polypeptide binding]; other site 546271001555 hemerythrin-like metal-binding domain; Region: hemeryth_dom; TIGR02481 546271001556 diferric-oxygen binding site [ion binding]; other site 546271001557 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl11605 546271001558 hemerythrin-like metal-binding domain; Region: hemeryth_dom; TIGR02481 546271001559 octamerization interface [polypeptide binding]; other site 546271001560 diferric-oxygen binding site [ion binding]; other site 546271001561 recombination factor protein RarA; Reviewed; Region: PRK13342 546271001562 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...; Region: AAA; cd00009 546271001563 Walker A motif; other site 546271001564 ATP binding site [chemical binding]; other site 546271001565 Walker B motif; other site 546271001566 arginine finger; other site 546271001567 MgsA AAA+ ATPase C terminal; Region: MgsA_C; cl13440 546271001568 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 connected by an extended linker. The...; Region: HAMP; cl01054 546271001569 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 546271001570 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 546271001571 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271001572 Walker A/P-loop; other site 546271001573 ATP binding site [chemical binding]; other site 546271001574 Q-loop/lid; other site 546271001575 ABC transporter signature motif; other site 546271001576 Walker B; other site 546271001577 D-loop; other site 546271001578 H-loop/switch region; other site 546271001579 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 546271001580 TM-ABC transporter signature motif; other site 546271001581 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG2984 546271001582 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 546271001583 zinc binding site [ion binding]; other site 546271001584 putative ligand binding site [chemical binding]; other site 546271001585 PAS fold; Region: PAS_3; pfam08447 546271001586 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 546271001587 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 546271001588 PAS fold; Region: PAS_3; pfam08447 546271001589 putative active site [active] 546271001590 heme pocket [chemical binding]; other site 546271001591 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 546271001592 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 546271001593 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...; Region: PBPb; cd00134 546271001594 substrate binding pocket [chemical binding]; other site 546271001595 membrane-bound complex binding site; other site 546271001596 hinge residues; other site 546271001597 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 546271001598 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 546271001599 Diaminopimelate epimerase [Amino acid transport and metabolism]; Region: DapF; COG0253 546271001600 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 546271001601 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 546271001602 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 546271001603 Competence protein; Region: Competence; cl00471 546271001604 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 546271001605 metal binding site [ion binding]; metal-binding site 546271001606 active site 546271001607 I-site; other site 546271001608 Protein of unknown function (DUF997); Region: DUF997; cl01614 546271001609 Sodium:solute symporter family; Region: SSF; cl00456 546271001610 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 546271001611 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 546271001612 active site 546271001613 metal binding site [ion binding]; metal-binding site 546271001614 DNA binding site [nucleotide binding] 546271001615 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 546271001616 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 546271001617 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271001618 Walker A/P-loop; other site 546271001619 ATP binding site [chemical binding]; other site 546271001620 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 546271001621 Q-loop/lid; other site 546271001622 ABC transporter signature motif; other site 546271001623 Walker B; other site 546271001624 D-loop; other site 546271001625 H-loop/switch region; other site 546271001626 Protein of unknown function DUF262; Region: DUF262; cl14890 546271001627 Uncharacterized conserved protein (DUF2081); Region: DUF2081; cl09179 546271001628 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 546271001629 HsdM N-terminal domain; Region: HsdM_N; pfam12161 546271001630 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; cl12011 546271001631 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 546271001632 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 546271001633 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 546271001634 non-specific DNA binding site [nucleotide binding]; other site 546271001635 salt bridge; other site 546271001636 sequence-specific DNA binding site [nucleotide binding]; other site 546271001637 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 546271001638 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 546271001639 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 546271001640 ATP binding site [chemical binding]; other site 546271001641 putative Mg++ binding site [ion binding]; other site 546271001642 Type I restriction and modification enzyme - subunit R C terminal; Region: EcoR124_C; pfam12008 546271001643 ThiC family; Region: ThiC; cl08031 546271001644 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 546271001645 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 connected by an extended linker. The...; Region: HAMP; cl01054 546271001646 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 546271001647 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 546271001648 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 546271001649 Ferritin-like domain; Region: Ferritin; pfam00210 546271001650 dimerization interface [polypeptide binding]; other site 546271001651 DPS ferroxidase diiron center [ion binding]; other site 546271001652 ion pore; other site 546271001653 Bacitracin resistance protein BacA; Region: BacA; cl00858 546271001654 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 546271001655 active site 546271001656 DNA binding site [nucleotide binding] 546271001657 putative phosphate binding site [ion binding]; other site 546271001658 putative catalytic site [active] 546271001659 metal binding site A [ion binding]; metal-binding site 546271001660 AP binding site [nucleotide binding]; other site 546271001661 metal binding site B [ion binding]; metal-binding site 546271001662 Protein of unknown function DUF262; Region: DUF262; cl14890 546271001663 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...; Region: HNHc; cd00085 546271001664 active site 546271001665 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 546271001666 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...; Region: cpn10; cd00320 546271001667 oligomerisation interface [polypeptide binding]; other site 546271001668 mobile loop; other site 546271001669 roof hairpin; other site 546271001670 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 546271001671 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 546271001672 ring oligomerisation interface [polypeptide binding]; other site 546271001673 ATP/Mg binding site [chemical binding]; other site 546271001674 stacking interactions; other site 546271001675 hinge regions; other site 546271001676 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...; Region: TM_PBP2; cd06261 546271001677 dimer interface [polypeptide binding]; other site 546271001678 conserved gate region; other site 546271001679 putative PBP binding loops; other site 546271001680 ABC-ATPase subunit interface; other site 546271001681 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271001682 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 546271001683 Walker A/P-loop; other site 546271001684 ATP binding site [chemical binding]; other site 546271001685 Q-loop/lid; other site 546271001686 ABC transporter signature motif; other site 546271001687 Walker B; other site 546271001688 D-loop; other site 546271001689 H-loop/switch region; other site 546271001690 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 546271001691 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 546271001692 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate...; Region: MopB_Nitrate-R-NarG-like; cd02750 546271001693 [4Fe-4S] binding site [ion binding]; other site 546271001694 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-...; Region: Molybdopterin-Binding; cl09928 546271001695 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-...; Region: Molybdopterin-Binding; cl09928 546271001696 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-...; Region: Molybdopterin-Binding; cl09928 546271001697 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 546271001698 molybdopterin cofactor binding site; other site 546271001699 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 546271001700 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 546271001701 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 546271001702 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 546271001703 putative MPT binding site; other site 546271001704 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 546271001705 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 546271001706 dimer interface [polypeptide binding]; other site 546271001707 putative functional site; other site 546271001708 putative MPT binding site; other site 546271001709 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 546271001710 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 546271001711 FeS/SAM binding site; other site 546271001712 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 546271001713 MOSC domain; Region: MOSC; pfam03473 546271001714 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea...; Region: MogA_MoaB; cd00886 546271001715 MPT binding site; other site 546271001716 trimer interface [polypeptide binding]; other site 546271001717 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 546271001718 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 546271001719 GTP binding site [chemical binding]; other site 546271001720 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 546271001721 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 546271001722 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 546271001723 S-adenosylmethionine binding site [chemical binding]; other site 546271001724 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 546271001725 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 546271001726 putative substrate translocation pore; other site 546271001727 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a...; Region: MoaC_PE; cd01420 546271001728 trimer interface [polypeptide binding]; other site 546271001729 dimer interface [polypeptide binding]; other site 546271001730 putative active site [active] 546271001731 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 546271001732 BAX inhibitor (BI)-1 like protein family. Mammalian members of this family of small transmembrane proteins have been shown to have an antiapoptotic effect either by stimulating the antiapoptotic function of Bcl-2, a well characterized oncogene, or...; Region: BI-1-like; cl00473 546271001733 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 546271001734 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...; Region: GFAT; cd00714 546271001735 glutaminase active site [active] 546271001736 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 546271001737 dimer interface [polypeptide binding]; other site 546271001738 active site 546271001739 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 546271001740 dimer interface [polypeptide binding]; other site 546271001741 active site 546271001742 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07107 546271001743 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; cl09108 546271001744 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 key...; Region: CBS_pair_IMPDH_2; cd04602 546271001745 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 the...; Region: IMPDH; cd00381 546271001746 active site 546271001747 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 546271001748 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 546271001749 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 546271001750 Divergent AAA domain; Region: AAA_4; pfam04326 546271001751 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 546271001752 TIGR02687 family protein; Region: TIGR02687 546271001753 PglZ domain; Region: PglZ; pfam08665 546271001754 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 546271001755 Protein of unknown function (DUF464); Region: DUF464; cl01080 546271001756 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 546271001757 GTPase CgtA; Reviewed; Region: obgE; PRK12297 546271001758 GTP1/OBG; Region: GTP1_OBG; pfam01018 546271001759 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 546271001760 G1 box; other site 546271001761 GTP/Mg2+ binding site [chemical binding]; other site 546271001762 Switch I region; other site 546271001763 G2 box; other site 546271001764 G3 box; other site 546271001765 Switch II region; other site 546271001766 G4 box; other site 546271001767 G5 box; other site 546271001768 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 546271001769 gamma-glutamyl kinase; Provisional; Region: PRK05429 546271001770 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 546271001771 nucleotide binding site [chemical binding]; other site 546271001772 homotetrameric interface [polypeptide binding]; other site 546271001773 putative phosphate binding site [ion binding]; other site 546271001774 putative allosteric binding site; other site 546271001775 PUA domain; Region: PUA; cl00607 546271001776 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 546271001777 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 546271001778 putative catalytic cysteine [active] 546271001779 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 546271001780 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 546271001781 active site 546271001782 (T/H)XGH motif; other site 546271001783 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 546271001784 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 546271001785 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 546271001786 Domain of unknown function DUF143; Region: DUF143; cl00519 546271001787 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 546271001788 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 546271001789 RNA binding site [nucleotide binding]; other site 546271001790 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 546271001791 Response regulator receiver domain; Region: Response_reg; pfam00072 546271001792 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 546271001793 active site 546271001794 phosphorylation site [posttranslational modification] 546271001795 intermolecular recognition site; other site 546271001796 dimerization interface [polypeptide binding]; other site 546271001797 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 546271001798 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 546271001799 23S rRNA interface [nucleotide binding]; other site 546271001800 L3 interface [polypeptide binding]; other site 546271001801 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 546271001802 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 546271001803 MatE; Region: MatE; pfam01554 546271001804 MatE; Region: MatE; pfam01554 546271001805 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 546271001806 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 546271001807 active site 546271001808 metal binding site [ion binding]; metal-binding site 546271001809 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 546271001810 Stage II sporulation protein; Region: SpoIID; cl07201 546271001811 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 546271001812 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 546271001813 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 546271001814 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 546271001815 Preprotein translocase subunit; Region: YajC; cl00806 546271001816 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 546271001817 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 546271001818 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 546271001819 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 546271001820 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 546271001821 Protein export membrane protein; Region: SecD_SecF; cl14618 546271001822 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 546271001823 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 546271001824 Protein export membrane protein; Region: SecD_SecF; cl14618 546271001825 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 546271001826 DHH family; Region: DHH; pfam01368 546271001827 DHHA1 domain; Region: DHHA1; pfam02272 546271001828 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 546271001829 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 546271001830 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 546271001831 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 546271001832 synthetase active site [active] 546271001833 NTP binding site [chemical binding]; other site 546271001834 metal binding site [ion binding]; metal-binding site 546271001835 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...; Region: TGS_RelA_SpoT; cd01668 546271001836 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 546271001837 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 546271001838 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 546271001839 metal binding site 2 [ion binding]; metal-binding site 546271001840 putative DNA binding helix; other site 546271001841 metal binding site 1 [ion binding]; metal-binding site 546271001842 dimer interface [polypeptide binding]; other site 546271001843 structural Zn2+ binding site [ion binding]; other site 546271001844 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 546271001845 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; cl14056 546271001846 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 546271001847 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 ATP-dependent...; Region: HisRS-like_core; cd00773 546271001848 dimer interface [polypeptide binding]; other site 546271001849 motif 1; other site 546271001850 active site 546271001851 motif 2; other site 546271001852 motif 3; other site 546271001853 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 546271001854 anticodon binding site; other site 546271001855 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 546271001856 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 546271001857 dimer interface [polypeptide binding]; other site 546271001858 anticodon binding site; other site 546271001859 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 the...; Region: AspRS_core; cd00777 546271001860 homodimer interface [polypeptide binding]; other site 546271001861 motif 1; other site 546271001862 active site 546271001863 motif 2; other site 546271001864 GAD domain; Region: GAD; pfam02938 546271001865 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 the...; Region: AspRS_core; cd00777 546271001866 motif 3; other site 546271001867 Cache domain; Region: Cache_1; pfam02743 546271001868 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 connected by an extended linker. The...; Region: HAMP; cl01054 546271001869 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 546271001870 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 546271001871 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 546271001872 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 546271001873 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 546271001874 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 546271001875 putative homodimer interface [polypeptide binding]; other site 546271001876 Ribosomal protein L11/L12; Region: RL11; smart00649 546271001877 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 546271001878 putative thiostrepton binding site; other site 546271001879 23S rRNA interface [nucleotide binding]; other site 546271001880 L7/L12 interface [polypeptide binding]; other site 546271001881 L25 interface [polypeptide binding]; other site 546271001882 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...; Region: Ribosomal_L1; cd00403 546271001883 mRNA/rRNA interface [nucleotide binding]; other site 546271001884 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...; Region: Ribosomal_L10; cd05797 546271001885 23S rRNA interface [nucleotide binding]; other site 546271001886 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 546271001887 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 546271001888 core dimer interface [polypeptide binding]; other site 546271001889 peripheral dimer interface [polypeptide binding]; other site 546271001890 L10 interface [polypeptide binding]; other site 546271001891 L11 interface [polypeptide binding]; other site 546271001892 putative EF-Tu interaction site [polypeptide binding]; other site 546271001893 putative EF-G interaction site [polypeptide binding]; other site 546271001894 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 546271001895 D-galactonate transporter; Region: 2A0114; TIGR00893 546271001896 putative substrate translocation pore; other site 546271001897 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 546271001898 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 546271001899 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 546271001900 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 546271001901 putative active site [active] 546271001902 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 546271001903 substrate binding site [chemical binding]; other site 546271001904 dimer interface [polypeptide binding]; other site 546271001905 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid...; Region: MECDP_synthase; cd00554 546271001906 homotrimer interaction site [polypeptide binding]; other site 546271001907 zinc binding site [ion binding]; other site 546271001908 CDP-binding sites; other site 546271001909 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 546271001910 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 546271001911 active site 546271001912 HIGH motif; other site 546271001913 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 546271001914 KMSKS motif; other site 546271001915 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 546271001916 tRNA binding surface [nucleotide binding]; other site 546271001917 anticodon binding site; other site 546271001918 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 post-...; Region: RIBOc; cl00258 546271001919 Thymidylate synthase complementing protein; Region: Thy1; cl03630 546271001920 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 546271001921 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 546271001922 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 546271001923 YacP-like NYN domain; Region: NYN_YacP; cl01491 546271001924 RNA polymerase factor sigma-70; Validated; Region: PRK08295 546271001925 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 546271001926 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...; Region: Sigma70_r4; cl01055 546271001927 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 546271001928 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 546271001929 active site 546271001930 motif I; other site 546271001931 motif II; other site 546271001932 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; cl11391 546271001933 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 546271001934 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 546271001935 active site 546271001936 metal binding site [ion binding]; metal-binding site 546271001937 Sporulation and spore germination; Region: Germane; pfam10646 546271001938 RelB antitoxin; Region: RelB; cl01171 546271001939 Sodium:solute symporter family; Region: SSF; cl00456 546271001940 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 546271001941 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 546271001942 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 546271001943 Response regulator receiver domain; Region: Response_reg; pfam00072 546271001944 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 546271001945 active site 546271001946 phosphorylation site [posttranslational modification] 546271001947 intermolecular recognition site; other site 546271001948 dimerization interface [polypeptide binding]; other site 546271001949 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 546271001950 CheC-like family; Region: CheC; pfam04509 546271001951 methionine aminopeptidase; Provisional; Region: PRK12318 546271001952 SEC-C motif; Region: SEC-C; cl12132 546271001953 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 546271001954 active site 546271001955 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 546271001956 DEAD-like helicases superfamily; Region: DEXDc; smart00487 546271001957 ATP binding site [chemical binding]; other site 546271001958 Mg++ binding site [ion binding]; other site 546271001959 motif III; other site 546271001960 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 546271001961 nucleotide binding region [chemical binding]; other site 546271001962 ATP-binding site [chemical binding]; other site 546271001963 Cache domain; Region: Cache_1; pfam02743 546271001964 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 connected by an extended linker. The...; Region: HAMP; cl01054 546271001965 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 546271001966 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 546271001967 Sulfate transporter family; Region: Sulfate_transp; cl00967 546271001968 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 546271001969 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 546271001970 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 546271001971 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271001972 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 546271001973 ABC transporter; Region: ABC_tran_2; pfam12848 546271001974 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 546271001975 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 546271001976 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 546271001977 ATP binding site [chemical binding]; other site 546271001978 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...; Region: AroH; cd02185 546271001979 homotrimer interaction site [polypeptide binding]; other site 546271001980 active site 546271001981 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 546271001982 homotrimer interaction site [polypeptide binding]; other site 546271001983 putative active site [active] 546271001984 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 546271001985 NAD synthetase; Provisional; Region: PRK13981 546271001986 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 546271001987 multimer interface [polypeptide binding]; other site 546271001988 active site 546271001989 catalytic triad [active] 546271001990 protein interface 1 [polypeptide binding]; other site 546271001991 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 546271001992 Ligand Binding Site [chemical binding]; other site 546271001993 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 546271001994 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 546271001995 YcfA-like protein; Region: YcfA; cl00752 546271001996 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS); Region: YbaK_deacylase; cd00002 546271001997 putative deacylase active site [active] 546271001998 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 546271001999 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants...; Region: Thr-synth_2; cd01560 546271002000 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546271002001 catalytic residue [active] 546271002002 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 546271002003 active site 546271002004 substrate-binding site [chemical binding]; other site 546271002005 metal-binding site [ion binding] 546271002006 ATP binding site [chemical binding]; other site 546271002007 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 546271002008 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 four-...; Region: RecG_wedge_OBF; cd04488 546271002009 ssDNA binding site; other site 546271002010 generic binding surface II; other site 546271002011 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 546271002012 ATP binding site [chemical binding]; other site 546271002013 putative Mg++ binding site [ion binding]; other site 546271002014 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 546271002015 nucleotide binding region [chemical binding]; other site 546271002016 ATP-binding site [chemical binding]; other site 546271002017 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 546271002018 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 546271002019 substrate binding site [chemical binding]; other site 546271002020 tetramer interface [polypeptide binding]; other site 546271002021 Cupin domain; Region: Cupin_2; cl09118 546271002022 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 546271002023 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 546271002024 NAD binding site [chemical binding]; other site 546271002025 substrate binding site [chemical binding]; other site 546271002026 homodimer interface [polypeptide binding]; other site 546271002027 active site 546271002028 Transcriptional regulator [Transcription]; Region: LysR; COG0583 546271002029 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 546271002030 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 546271002031 dimerization interface [polypeptide binding]; other site 546271002032 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 546271002033 Major Facilitator Superfamily; Region: MFS_1; pfam07690 546271002034 putative substrate translocation pore; other site 546271002035 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 546271002036 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 546271002037 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 546271002038 Rrf2 family protein; Region: rrf2_super; TIGR00738 546271002039 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 546271002040 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 546271002041 substrate binding pocket [chemical binding]; other site 546271002042 chain length determination region; other site 546271002043 substrate-Mg2+ binding site; other site 546271002044 catalytic residues [active] 546271002045 aspartate-rich region 1; other site 546271002046 active site lid residues [active] 546271002047 aspartate-rich region 2; other site 546271002048 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 546271002049 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 546271002050 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 546271002051 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 546271002052 UbiA prenyltransferase family; Region: UbiA; cl00337 546271002053 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 546271002054 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 546271002055 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 546271002056 homodimer interface [polypeptide binding]; other site 546271002057 NADP binding site [chemical binding]; other site 546271002058 substrate binding site [chemical binding]; other site 546271002059 Formate--tetrahydrofolate ligase; Region: FTHFS; pfam01268 546271002060 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 546271002061 Potassium binding sites [ion binding]; other site 546271002062 Cesium cation binding sites [ion binding]; other site 546271002063 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 546271002064 active site 546271002065 NTP binding site [chemical binding]; other site 546271002066 metal binding triad [ion binding]; metal-binding site 546271002067 antibiotic binding site [chemical binding]; other site 546271002068 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl08495 546271002069 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...; Region: MTHFR; cl00246 546271002070 FAD binding site [chemical binding]; other site 546271002071 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 546271002072 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 546271002073 FAD binding pocket [chemical binding]; other site 546271002074 FAD binding motif [chemical binding]; other site 546271002075 phosphate binding motif [ion binding]; other site 546271002076 beta-alpha-beta structure motif; other site 546271002077 NAD binding pocket [chemical binding]; other site 546271002078 Iron coordination center [ion binding]; other site 546271002079 putative oxidoreductase; Provisional; Region: PRK12831 546271002080 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 546271002081 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 546271002082 active site 546271002083 substrate binding site [chemical binding]; other site 546271002084 catalytic site [active] 546271002085 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 546271002086 dimer interface [polypeptide binding]; other site 546271002087 pyridoxal binding site [chemical binding]; other site 546271002088 ATP binding site [chemical binding]; other site 546271002089 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...; Region: Ribosomal_S15p_S13e; cd00353 546271002090 16S/18S rRNA binding site [nucleotide binding]; other site 546271002091 S13e-L30e interaction site [polypeptide binding]; other site 546271002092 25S rRNA binding site [nucleotide binding]; other site 546271002093 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 546271002094 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 546271002095 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 546271002096 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 546271002097 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 546271002098 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 546271002099 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 546271002100 putative nucleic acid binding region [nucleotide binding]; other site 546271002101 G-X-X-G motif; other site 546271002102 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 546271002103 RNA binding site [nucleotide binding]; other site 546271002104 domain interface; other site 546271002105 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 546271002106 cytoskeletal protein RodZ; Provisional; Region: PRK10856 546271002107 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 546271002108 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 546271002109 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; cl14056 546271002110 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 546271002111 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 546271002112 ATP cone domain; Region: ATP-cone; pfam03477 546271002113 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 546271002114 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 546271002115 B12 binding site [chemical binding]; other site 546271002116 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 546271002117 FeS/SAM binding site; other site 546271002118 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 546271002119 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 546271002120 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 546271002121 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 546271002122 catalytic residue [active] 546271002123 Protein of unknown function (DUF552); Region: DUF552; cl00775 546271002124 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546271002125 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 546271002126 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 546271002127 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 546271002128 RNA binding surface [nucleotide binding]; other site 546271002129 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 546271002130 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 546271002131 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 546271002132 RNA binding surface [nucleotide binding]; other site 546271002133 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 546271002134 active site 546271002135 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 546271002136 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 546271002137 Autotransporter beta-domain; Region: Autotransporter; cl02365 546271002138 general stress protein 13; Validated; Region: PRK08059 546271002139 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_hs4; cd05692 546271002140 RNA binding site [nucleotide binding]; other site 546271002141 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 546271002142 Ligand Binding Site [chemical binding]; other site 546271002143 B3/4 domain; Region: B3_4; cl11458 546271002144 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 546271002145 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 546271002146 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 546271002147 Walker A/P-loop; other site 546271002148 ATP binding site [chemical binding]; other site 546271002149 Q-loop/lid; other site 546271002150 ABC transporter signature motif; other site 546271002151 Walker B; other site 546271002152 D-loop; other site 546271002153 H-loop/switch region; other site 546271002154 Cobalt ATP-binding cassette C terminal; Region: CoABC_C; pfam12370 546271002155 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 546271002156 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 546271002157 Walker A/P-loop; other site 546271002158 ATP binding site [chemical binding]; other site 546271002159 Q-loop/lid; other site 546271002160 ABC transporter signature motif; other site 546271002161 Walker B; other site 546271002162 D-loop; other site 546271002163 H-loop/switch region; other site 546271002164 Cobalt ATP-binding cassette C terminal; Region: CoABC_C; pfam12370 546271002165 Cobalt transport protein; Region: CbiQ; cl00463 546271002166 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1)...; Region: PseudoU_synth_EcTruA; cd02570 546271002167 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 546271002168 dimerization interface 3.5A [polypeptide binding]; other site 546271002169 active site 546271002170 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 546271002171 RelB antitoxin; Region: RelB; cl01171 546271002172 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 546271002173 excinuclease ABC subunit B; Provisional; Region: PRK05298 546271002174 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; cl14882 546271002175 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 546271002176 nucleotide binding region [chemical binding]; other site 546271002177 ATP-binding site [chemical binding]; other site 546271002178 Ultra-violet resistance protein B; Region: UvrB; pfam12344 546271002179 UvrB/uvrC motif; Region: UVR; pfam02151 546271002180 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 546271002181 Zn2+ binding site [ion binding]; other site 546271002182 Mg2+ binding site [ion binding]; other site 546271002183 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 546271002184 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 546271002185 active site 546271002186 HIGH motif; other site 546271002187 nucleotide binding site [chemical binding]; other site 546271002188 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 546271002189 KMSKS motif; other site 546271002190 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 546271002191 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 546271002192 transmembrane helices; other site 546271002193 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 546271002194 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 546271002195 HIGH motif; other site 546271002196 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 546271002197 active site 546271002198 KMSKS motif; other site 546271002199 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 546271002200 tRNA binding surface [nucleotide binding]; other site 546271002201 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 546271002202 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 546271002203 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 546271002204 ATP binding site [chemical binding]; other site 546271002205 putative Mg++ binding site [ion binding]; other site 546271002206 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 546271002207 nucleotide binding region [chemical binding]; other site 546271002208 ATP-binding site [chemical binding]; other site 546271002209 TRCF domain; Region: TRCF; pfam03461 546271002210 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 546271002211 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 higher-...; Region: HU_IHF; cd00591 546271002212 IHF dimer interface [polypeptide binding]; other site 546271002213 IHF - DNA interface [nucleotide binding]; other site 546271002214 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 546271002215 classical (c) SDRs; Region: SDR_c; cd05233 546271002216 NAD(P) binding site [chemical binding]; other site 546271002217 active site 546271002218 UDP-N-acetylglucosamine:LPS N-acetylglucosamine transferase [Cell envelope biogenesis, outer membrane]; Region: MurG; COG0707 546271002219 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 546271002220 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 546271002221 Septum formation initiator; Region: DivIC; cl11433 546271002222 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 546271002223 YcfA-like protein; Region: YcfA; cl00752 546271002224 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 546271002225 YlqF. Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases...; Region: YlqF; cd01856 546271002226 GTP/Mg2+ binding site [chemical binding]; other site 546271002227 G4 box; other site 546271002228 G5 box; other site 546271002229 G1 box; other site 546271002230 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 546271002231 Switch I region; other site 546271002232 G2 box; other site 546271002233 G3 box; other site 546271002234 Switch II region; other site 546271002235 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 546271002236 RNA/DNA hybrid binding site [nucleotide binding]; other site 546271002237 active site 546271002238 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 546271002239 Uncharacterised protein family UPF0102; Region: UPF0102; cl00516 546271002240 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 546271002241 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...; Region: TroA-like; cl00262 546271002242 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 546271002243 intersubunit interface [polypeptide binding]; other site 546271002244 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 546271002245 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...; Region: TM_ABC_iron-siderophores_like; cd06550 546271002246 ABC-ATPase subunit interface; other site 546271002247 dimer interface [polypeptide binding]; other site 546271002248 putative PBP binding regions; other site 546271002249 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 546271002250 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 546271002251 Walker A/P-loop; other site 546271002252 ATP binding site [chemical binding]; other site 546271002253 Q-loop/lid; other site 546271002254 ABC transporter signature motif; other site 546271002255 Walker B; other site 546271002256 D-loop; other site 546271002257 H-loop/switch region; other site 546271002258 Transcriptional regulator [Transcription]; Region: LysR; COG0583 546271002259 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 546271002260 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 546271002261 dimerization interface [polypeptide binding]; other site 546271002262 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 546271002263 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large (...; Region: ABC_SMC_barmotin; cd03278 546271002264 Walker A/P-loop; other site 546271002265 ATP binding site [chemical binding]; other site 546271002266 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 546271002267 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large (...; Region: ABC_SMC_barmotin; cd03278 546271002268 ABC transporter signature motif; other site 546271002269 Walker B; other site 546271002270 D-loop; other site 546271002271 H-loop/switch region; other site 546271002272 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 546271002273 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 546271002274 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 546271002275 P loop; other site 546271002276 GTP binding site [chemical binding]; other site 546271002277 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 546271002278 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 546271002279 G1 box; other site 546271002280 putative GEF interaction site [polypeptide binding]; other site 546271002281 GTP/Mg2+ binding site [chemical binding]; other site 546271002282 Switch I region; other site 546271002283 G2 box; other site 546271002284 G3 box; other site 546271002285 Switch II region; other site 546271002286 G4 box; other site 546271002287 G5 box; other site 546271002288 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 546271002289 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...; Region: BipA_TypA_C; cd03710 546271002290 Protein of unknown function (DUF552); Region: DUF552; cl00775 546271002291 M28, and M42; Region: Zinc_peptidase_like; cl14876 546271002292 aminoacyl-histidine dipeptidase; Region: aa-his-dipept; TIGR01893 546271002293 metal binding site [ion binding]; metal-binding site 546271002294 Predicted O-acyltransferase [General function prediction only]; Region: COG3274; cl00792 546271002295 Acyltransferase family; Region: Acyl_transf_3; pfam01757 546271002296 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 546271002297 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 546271002298 AzlC protein; Region: AzlC; cl00570 546271002299 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 546271002300 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 546271002301 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 546271002302 hydrogenase maturation GTPase HydF; Region: GTP_HydF; TIGR03918 546271002303 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs)...; Region: Era_like; cd00880 546271002304 G1 box; other site 546271002305 GTP/Mg2+ binding site [chemical binding]; other site 546271002306 Switch I region; other site 546271002307 G2 box; other site 546271002308 Switch II region; other site 546271002309 G3 box; other site 546271002310 G4 box; other site 546271002311 G5 box; other site 546271002312 Acylphosphatase; Region: Acylphosphatase; cl00551 546271002313 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 546271002314 HypF finger; Region: zf-HYPF; pfam07503 546271002315 HypF finger; Region: zf-HYPF; pfam07503 546271002316 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 546271002317 glutamine synthetase, type I; Region: GlnA; TIGR00653 546271002318 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 546271002319 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 546271002320 heterodimer interface [polypeptide binding]; other site 546271002321 substrate interaction site [chemical binding]; other site 546271002322 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 546271002323 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 546271002324 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily...; Region: MM_CoA_mutase_alpha_like; cd03679 546271002325 active site 546271002326 substrate binding site [chemical binding]; other site 546271002327 coenzyme B12 binding site [chemical binding]; other site 546271002328 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen...; Region: MM_CoA_mut_B12_BD; cd02071 546271002329 B12 binding site [chemical binding]; other site 546271002330 cobalt ligand [ion binding]; other site 546271002331 membrane ATPase/protein kinase; Provisional; Region: PRK09435 546271002332 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 546271002333 Walker A; other site 546271002334 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 546271002335 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 546271002336 CbiD; Region: CbiD; cl00828 546271002337 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 546271002338 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 546271002339 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 546271002340 S-adenosylmethionine binding site [chemical binding]; other site 546271002341 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 546271002342 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 546271002343 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 546271002344 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 546271002345 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 546271002346 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 546271002347 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 546271002348 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 546271002349 Precorrin-8X methylmutase; Region: CbiC; pfam02570 546271002350 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 546271002351 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 546271002352 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 546271002353 catalytic triad [active] 546271002354 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is...; Region: CobU; cd00544 546271002355 homotrimer interface [polypeptide binding]; other site 546271002356 Walker A motif; other site 546271002357 GTP binding site [chemical binding]; other site 546271002358 Walker B motif; other site 546271002359 cobyric acid synthase; Provisional; Region: PRK00784 546271002360 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 546271002361 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 546271002362 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 546271002363 catalytic triad [active] 546271002364 CobD/Cbib protein; Region: CobD_Cbib; cl00561 546271002365 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 546271002366 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 546271002367 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 546271002368 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546271002369 homodimer interface [polypeptide binding]; other site 546271002370 catalytic residue [active] 546271002371 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 546271002372 catalytic core [active] 546271002373 hypothetical protein; Provisional; Region: PRK13670 546271002374 hypothetical protein; Provisional; Region: PRK13671 546271002375 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 546271002376 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 546271002377 Ligand Binding Site [chemical binding]; other site 546271002378 BioY family; Region: BioY; cl00560 546271002379 LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback...; Region: LabA_like; cd06167 546271002380 putative metal binding site [ion binding]; other site 546271002381 Domain of unknown function (DUF3783); Region: DUF3783; pfam12646 546271002382 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 546271002383 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 546271002384 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars...; Region: ABC_NrtD_SsuB_transporters; cd03293 546271002385 Walker A/P-loop; other site 546271002386 ATP binding site [chemical binding]; other site 546271002387 Q-loop/lid; other site 546271002388 ABC transporter signature motif; other site 546271002389 Walker B; other site 546271002390 D-loop; other site 546271002391 H-loop/switch region; other site 546271002392 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...; Region: TM_PBP2; cd06261 546271002393 dimer interface [polypeptide binding]; other site 546271002394 conserved gate region; other site 546271002395 putative PBP binding loops; other site 546271002396 ABC-ATPase subunit interface; other site 546271002397 Late competence development protein ComFB; Region: ComFB; pfam10719 546271002398 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 546271002399 Domain of unknown function DUF21; Region: DUF21; pfam01595 546271002400 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 546271002401 Transporter associated domain; Region: CorC_HlyC; pfam03471 546271002402 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 546271002403 VanW like protein; Region: VanW; pfam04294 546271002404 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 546271002405 Flavoprotein; Region: Flavoprotein; cl08021 546271002406 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 546271002407 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 546271002408 Beta-Casp domain; Region: Beta-Casp; pfam10996 546271002409 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 546271002410 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 546271002411 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 546271002412 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 546271002413 dihydroorotase; Validated; Region: pyrC; PRK09357 546271002414 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...; Region: metallo-dependent_hydrolases; cl00281 546271002415 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C...; Region: DHOase_IIa; cd01317 546271002416 active site 546271002417 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 546271002418 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 546271002419 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 546271002420 catalytic site [active] 546271002421 subunit interface [polypeptide binding]; other site 546271002422 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 546271002423 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 546271002424 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 546271002425 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 546271002426 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 546271002427 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 546271002428 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 546271002429 IMP binding site; other site 546271002430 dimer interface [polypeptide binding]; other site 546271002431 interdomain contacts; other site 546271002432 partial ornithine binding site; other site 546271002433 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 contains two...; Region: OMP_decarboxylase_like; cd04725 546271002434 active site 546271002435 dimer interface [polypeptide binding]; other site 546271002436 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 546271002437 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 546271002438 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 546271002439 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 546271002440 catalytic residue [active] 546271002441 LexA repressor; Validated; Region: PRK00215 546271002442 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 546271002443 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 (...; Region: S24_LexA-like; cd06529 546271002444 Catalytic site [active] 546271002445 Restriction endonuclease; Region: Mrr_cat; cl00747 546271002446 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 546271002447 active site 546271002448 NTP binding site [chemical binding]; other site 546271002449 metal binding triad [ion binding]; metal-binding site 546271002450 antibiotic binding site [chemical binding]; other site 546271002451 Protein of unknown function DUF86; Region: DUF86; cl01031 546271002452 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 546271002453 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 546271002454 Surface antigen; Region: Bac_surface_Ag; cl03097 546271002455 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 546271002456 Transposase IS200 like; Region: Y1_Tnp; cl00848 546271002457 Predicted transcriptional regulator [Transcription]; Region: COG2378 546271002458 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 546271002459 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 546271002460 putative transposase OrfB; Reviewed; Region: PHA02517 546271002461 Integrase core domain; Region: rve; cl01316 546271002462 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl01116 546271002463 putative transposase OrfB; Reviewed; Region: PHA02517 546271002464 Integrase core domain; Region: rve; cl01316 546271002465 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 546271002466 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 546271002467 putative transposase OrfB; Reviewed; Region: PHA02517 546271002468 Integrase core domain; Region: rve; cl01316 546271002469 Mg chelatase-related protein; Region: TIGR00368 546271002470 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 546271002471 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271002472 TfoX N-terminal domain; Region: TfoX_N; cl01167 546271002473 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 546271002474 Phosphate transporter family; Region: PHO4; cl00396 546271002475 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 546271002476 GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but...; Region: TGS; cl03735 546271002477 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 546271002478 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 546271002479 Active site [active] 546271002480 oxaloacetate decarboxylase; Provisional; Region: PRK12331 546271002481 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 546271002482 active site 546271002483 catalytic residues [active] 546271002484 metal binding site [ion binding]; metal-binding site 546271002485 homodimer binding site [polypeptide binding]; other site 546271002486 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 546271002487 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and D-...; Region: D-AAT_like; cd01558 546271002488 homodimer interface [polypeptide binding]; other site 546271002489 substrate-cofactor binding pocket; other site 546271002490 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546271002491 Aminotransferase class IV; Region: Aminotran_4; pfam01063 546271002492 catalytic residue [active] 546271002493 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 546271002494 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 546271002495 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 546271002496 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 546271002497 minor groove reading motif; other site 546271002498 helix-hairpin-helix signature motif; other site 546271002499 substrate binding pocket [chemical binding]; other site 546271002500 active site 546271002501 FES domain; Region: FES; smart00525 546271002502 bifunctional argininosuccinate lyase/N-acetylglutamate synthase; Provisional; Region: PRK12308 546271002503 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 546271002504 Coenzyme A binding pocket [chemical binding]; other site 546271002505 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 546271002506 NeuB family; Region: NeuB; cl00496 546271002507 Prephenate dehydrogenase; Region: PDH; pfam02153 546271002508 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546271002509 DNA gyrase, B subunit; Region: gyrB; TIGR01059 546271002510 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 546271002511 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; cl04593 546271002512 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 546271002513 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 546271002514 RPB1 interaction site [polypeptide binding]; other site 546271002515 RPB10 interaction site [polypeptide binding]; other site 546271002516 RPB11 interaction site [polypeptide binding]; other site 546271002517 RPB3 interaction site [polypeptide binding]; other site 546271002518 RPB12 interaction site [polypeptide binding]; other site 546271002519 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 546271002520 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 546271002521 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 546271002522 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 546271002523 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 546271002524 RNA polymerase beta'' subunit; Reviewed; Region: rpoC2; CHL00117 546271002525 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 546271002526 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 546271002527 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 546271002528 G-loop; other site 546271002529 DNA binding site [nucleotide binding] 546271002530 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 546271002531 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 546271002532 inhibitor-cofactor binding pocket; inhibition site 546271002533 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546271002534 catalytic residue [active] 546271002535 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 546271002536 Peptidase family U32; Region: Peptidase_U32; cl03113 546271002537 Peptidase family U32; Region: Peptidase_U32; cl03113 546271002538 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 546271002539 metal binding site 2 [ion binding]; metal-binding site 546271002540 putative DNA binding helix; other site 546271002541 metal binding site 1 [ion binding]; metal-binding site 546271002542 dimer interface [polypeptide binding]; other site 546271002543 structural Zn2+ binding site [ion binding]; other site 546271002544 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 546271002545 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 546271002546 FAD binding pocket [chemical binding]; other site 546271002547 FAD binding motif [chemical binding]; other site 546271002548 phosphate binding motif [ion binding]; other site 546271002549 beta-alpha-beta structure motif; other site 546271002550 NAD binding pocket [chemical binding]; other site 546271002551 Iron coordination center [ion binding]; other site 546271002552 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 546271002553 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 546271002554 heterodimer interface [polypeptide binding]; other site 546271002555 active site 546271002556 FMN binding site [chemical binding]; other site 546271002557 homodimer interface [polypeptide binding]; other site 546271002558 substrate binding site [chemical binding]; other site 546271002559 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 546271002560 SLBB domain; Region: SLBB; pfam10531 546271002561 comEA protein; Region: comE; TIGR01259 546271002562 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 546271002563 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 546271002564 Competence protein; Region: Competence; cl00471 546271002565 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 546271002566 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 546271002567 active site 546271002568 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 546271002569 TM2 domain; Region: TM2; cl00984 546271002570 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 546271002571 AIR carboxylase; Region: AIRC; cl00310 546271002572 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 546271002573 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 546271002574 ATP binding site [chemical binding]; other site 546271002575 active site 546271002576 substrate binding site [chemical binding]; other site 546271002577 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 546271002578 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...; Region: PurM; cd02196 546271002579 dimerization interface [polypeptide binding]; other site 546271002580 putative ATP binding site [chemical binding]; other site 546271002581 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 546271002582 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 546271002583 active site 546271002584 substrate binding site [chemical binding]; other site 546271002585 cosubstrate binding site; other site 546271002586 catalytic site [active] 546271002587 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 5-aminoimidazole-4-carboxamide-; Region: IMPCH; cd01421 546271002588 purine monophosphate binding site [chemical binding]; other site 546271002589 dimer interface [polypeptide binding]; other site 546271002590 putative catalytic residues [active] 546271002591 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 546271002592 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 546271002593 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 546271002594 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 546271002595 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 546271002596 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 546271002597 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 546271002598 Peptidase M16C associated; Region: M16C_assoc; pfam08367 546271002599 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 546271002600 dihydrodipicolinate synthase; Region: dapA; TIGR00674 546271002601 dimer interface [polypeptide binding]; other site 546271002602 active site 546271002603 catalytic residue [active] 546271002604 Protein of unknown function (DUF454); Region: DUF454; cl01063 546271002605 Transglycosylase; Region: Transgly; cl07896 546271002606 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 546271002607 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 546271002608 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546271002609 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 546271002610 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...; Region: OAT; cd02152 546271002611 heterotetramer interface [polypeptide binding]; other site 546271002612 active site pocket [active] 546271002613 cleavage site 546271002614 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using...; Region: AAK_NAGK-C; cd04250 546271002615 feedback inhibition sensing region; other site 546271002616 homohexameric interface [polypeptide binding]; other site 546271002617 carbamate kinase; Reviewed; Region: PRK12686 546271002618 nucleotide binding site [chemical binding]; other site 546271002619 N-acetyl-L-glutamate binding site [chemical binding]; other site 546271002620 acetylornithine aminotransferase; Provisional; Region: PRK02627 546271002621 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 546271002622 inhibitor-cofactor binding pocket; inhibition site 546271002623 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546271002624 catalytic residue [active] 546271002625 ornithine carbamoyltransferase; Provisional; Region: PRK00779 546271002626 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 546271002627 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 546271002628 argininosuccinate synthase; Provisional; Region: PLN00200 546271002629 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 546271002630 ANP binding site [chemical binding]; other site 546271002631 Substrate Binding Site II [chemical binding]; other site 546271002632 Substrate Binding Site I [chemical binding]; other site 546271002633 argininosuccinate lyase; Provisional; Region: PRK00855 546271002634 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 546271002635 active sites [active] 546271002636 tetramer interface [polypeptide binding]; other site 546271002637 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 546271002638 MatE; Region: MatE; pfam01554 546271002639 MatE; Region: MatE; pfam01554 546271002640 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 546271002641 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 546271002642 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 546271002643 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 546271002644 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 546271002645 CoA enzyme activase uncharacterised domain (DUF2229); Region: DUF2229; cl12083 546271002646 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 546271002647 Protein of unknown function (DUF445); Region: DUF445; pfam04286 546271002648 Protein of unknown function (DUF445); Region: DUF445; pfam04286 546271002649 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 546271002650 TPR motif; other site 546271002651 binding surface 546271002652 tetratricopeptide repeat protein; Provisional; Region: PRK11788 546271002653 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 546271002654 binding surface 546271002655 TPR motif; other site 546271002656 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 546271002657 binding surface 546271002658 TPR motif; other site 546271002659 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 546271002660 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 546271002661 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 546271002662 Surface antigen; Region: Bac_surface_Ag; cl03097 546271002663 haemagglutination activity domain; Region: Haemagg_act; cl05436 546271002664 Transposase IS200 like; Region: Y1_Tnp; cl00848 546271002665 dihydrodipicolinate reductase; Provisional; Region: PRK00048 546271002666 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546271002667 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 546271002668 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 546271002669 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546271002670 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 546271002671 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 546271002672 Uncharacterised protein family (UPF0081); Region: UPF0081; cl00525 546271002673 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 546271002674 YceG-like family; Region: YceG; pfam02618 546271002675 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 546271002676 dimerization interface [polypeptide binding]; other site 546271002677 putative protease; Provisional; Region: PRK15452 546271002678 Peptidase family U32; Region: Peptidase_U32; cl03113 546271002679 Acylphosphatase; Region: Acylphosphatase; cl00551 546271002680 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 546271002681 active site 546271002682 trimer interface [polypeptide binding]; other site 546271002683 dimer interface [polypeptide binding]; other site 546271002684 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 546271002685 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 546271002686 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 546271002687 active site 546271002688 elongation factor P; Validated; Region: PRK00529 546271002689 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 546271002690 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_1; cd04470 546271002691 RNA binding site [nucleotide binding]; other site 546271002692 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 546271002693 RNA binding site [nucleotide binding]; other site 546271002694 Protein of unknown function (DUF322); Region: DUF322; cl00574 546271002695 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 546271002696 putative RNA binding site [nucleotide binding]; other site 546271002697 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 546271002698 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 single-strand-...; Region: ExoVII_LU_OBF; cd04489 546271002699 generic binding surface II; other site 546271002700 generic binding surface I; other site 546271002701 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 546271002702 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 546271002703 substrate binding pocket [chemical binding]; other site 546271002704 chain length determination region; other site 546271002705 substrate-Mg2+ binding site; other site 546271002706 catalytic residues [active] 546271002707 aspartate-rich region 1; other site 546271002708 active site lid residues [active] 546271002709 aspartate-rich region 2; other site 546271002710 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 546271002711 TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products with important pharmaceutical activity. DXS...; Region: TPP_DXS; cd02007 546271002712 TPP-binding site; other site 546271002713 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 546271002714 PYR/PP interface [polypeptide binding]; other site 546271002715 dimer interface [polypeptide binding]; other site 546271002716 TPP binding site [chemical binding]; other site 546271002717 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 546271002718 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 546271002719 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 546271002720 RNA binding surface [nucleotide binding]; other site 546271002721 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; cl12011 546271002722 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 546271002723 arginine repressor; Provisional; Region: PRK04280 546271002724 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 546271002725 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 546271002726 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 546271002727 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 546271002728 Walker A/P-loop; other site 546271002729 ATP binding site [chemical binding]; other site 546271002730 Q-loop/lid; other site 546271002731 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 546271002732 ABC transporter signature motif; other site 546271002733 Walker B; other site 546271002734 D-loop; other site 546271002735 H-loop/switch region; other site 546271002736 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 546271002737 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...; Region: ADPRase_NUDT5; cd03424 546271002738 dimer interface [polypeptide binding]; other site 546271002739 ADP-ribose binding site [chemical binding]; other site 546271002740 active site 546271002741 nudix motif; other site 546271002742 metal binding site [ion binding]; metal-binding site 546271002743 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 546271002744 active site 546271002745 putative substrate binding region [chemical binding]; other site 546271002746 ScpA/B protein; Region: ScpA_ScpB; cl00598 546271002747 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 546271002748 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 546271002749 Peptidase family U32; Region: Peptidase_U32; cl03113 546271002750 Collagenase; Region: DUF3656; pfam12392 546271002751 Peptidase family U32; Region: Peptidase_U32; cl03113 546271002752 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 546271002753 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also...; Region: ABC_MutS2; cd03280 546271002754 Walker A/P-loop; other site 546271002755 ATP binding site [chemical binding]; other site 546271002756 Q-loop/lid; other site 546271002757 ABC transporter signature motif; other site 546271002758 Walker B; other site 546271002759 D-loop; other site 546271002760 H-loop/switch region; other site 546271002761 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding...; Region: GrpE; cl03075 546271002762 Smr domain; Region: Smr; cl02619 546271002763 Transglycosylase; Region: Transgly; cl07896 546271002764 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 546271002765 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 546271002766 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 546271002767 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 546271002768 active site 546271002769 HIGH motif; other site 546271002770 dimer interface [polypeptide binding]; other site 546271002771 KMSKS motif; other site 546271002772 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 546271002773 RNA binding surface [nucleotide binding]; other site 546271002774 Domain of unknown function DUF28; Region: DUF28; cl00361 546271002775 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 includes...; Region: RuvC_resolvase; cd00529 546271002776 active site 546271002777 putative DNA-binding cleft [nucleotide binding]; other site 546271002778 dimer interface [polypeptide binding]; other site 546271002779 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 546271002780 RuvA N terminal domain; Region: RuvA_N; pfam01330 546271002781 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 546271002782 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...; Region: AAA; cd00009 546271002783 Walker A motif; other site 546271002784 ATP binding site [chemical binding]; other site 546271002785 Walker B motif; other site 546271002786 arginine finger; other site 546271002787 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 546271002788 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 546271002789 Uncharacterized conserved protein [Function unknown]; Region: COG3589 546271002790 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 546271002791 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 546271002792 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIB_glc; cd00212 546271002793 active site turn [active] 546271002794 phosphorylation site [posttranslational modification] 546271002795 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 546271002796 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 546271002797 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 546271002798 putative active site [active] 546271002799 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 546271002800 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 546271002801 DNA polymerase I; Provisional; Region: PRK05755 546271002802 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 546271002803 active site 546271002804 metal binding site 1 [ion binding]; metal-binding site 546271002805 putative 5' ssDNA interaction site; other site 546271002806 metal binding site 3; metal-binding site 546271002807 metal binding site 2 [ion binding]; metal-binding site 546271002808 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 546271002809 putative DNA binding site [nucleotide binding]; other site 546271002810 putative metal binding site [ion binding]; other site 546271002811 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 546271002812 active site 546271002813 substrate binding site [chemical binding]; other site 546271002814 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 546271002815 active site 546271002816 DNA binding site [nucleotide binding] 546271002817 catalytic site [active] 546271002818 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 546271002819 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 546271002820 DNA binding site [nucleotide binding] 546271002821 catalytic residue [active] 546271002822 H2TH interface [polypeptide binding]; other site 546271002823 putative catalytic residues [active] 546271002824 turnover-facilitating residue; other site 546271002825 intercalation triad [nucleotide binding]; other site 546271002826 8OG recognition residue [nucleotide binding]; other site 546271002827 putative reading head residues; other site 546271002828 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 546271002829 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 546271002830 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 546271002831 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 546271002832 CoA-binding site [chemical binding]; other site 546271002833 ATP-binding [chemical binding]; other site 546271002834 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 catalyze...; Region: LT_GEWL; cd00254 546271002835 N-acetyl-D-glucosamine binding site [chemical binding]; other site 546271002836 catalytic residue [active] 546271002837 DNA polymerase III PolC; Validated; Region: polC; PRK00448 546271002838 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 546271002839 generic binding surface II; other site 546271002840 generic binding surface I; other site 546271002841 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 546271002842 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 546271002843 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 546271002844 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 546271002845 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 546271002846 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 546271002847 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; cl14056 546271002848 TRAM domain; Region: TRAM; cl01282 546271002849 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 546271002850 MutS domain I; Region: MutS_I; pfam01624 546271002851 MutS family domain IV; Region: MutS_IV; pfam05190 546271002852 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 546271002853 Walker A/P-loop; other site 546271002854 ATP binding site [chemical binding]; other site 546271002855 Q-loop/lid; other site 546271002856 ABC transporter signature motif; other site 546271002857 Walker B; other site 546271002858 D-loop; other site 546271002859 H-loop/switch region; other site 546271002860 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 546271002861 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 546271002862 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 546271002863 ATP binding site [chemical binding]; other site 546271002864 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 546271002865 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; cl12011 546271002866 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 546271002867 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...; Region: metallo-dependent_hydrolases; cl00281 546271002868 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(...; Region: Pep_deformylase; cd00487 546271002869 active site 546271002870 catalytic residues [active] 546271002871 metal binding site [ion binding]; metal-binding site 546271002872 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 546271002873 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 546271002874 putative active site [active] 546271002875 substrate binding site [chemical binding]; other site 546271002876 putative cosubstrate binding site; other site 546271002877 catalytic site [active] 546271002878 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 546271002879 substrate binding site [chemical binding]; other site 546271002880 Protein of unknown function DUF116; Region: DUF116; cl00800 546271002881 16S rRNA methyltransferase B; Provisional; Region: PRK14902 546271002882 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the rRNA-...; Region: NusB_Sun; cl00223 546271002883 putative RNA binding site [nucleotide binding]; other site 546271002884 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 546271002885 S-adenosylmethionine binding site [chemical binding]; other site 546271002886 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 546271002887 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 546271002888 FeS/SAM binding site; other site 546271002889 Protein of unknown function (DUF2662); Region: DUF3662; pfam12401 546271002890 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; cd00060 546271002891 phosphopeptide binding site; other site 546271002892 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; cd00060 546271002893 phosphopeptide binding site; other site 546271002894 Protein phosphatase 2C; Region: PP2C; pfam00481 546271002895 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 546271002896 Active site [active] 546271002897 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 546271002898 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 546271002899 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 546271002900 Catalytic domain of Protein Kinases; Region: PKc; cd00180 546271002901 active site 546271002902 ATP binding site [chemical binding]; other site 546271002903 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 546271002904 substrate binding site [chemical binding]; other site 546271002905 activation loop (A-loop); other site 546271002906 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 546271002907 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 546271002908 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 546271002909 GTPase RsgA; Reviewed; Region: PRK00098 546271002910 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence...; Region: YjeQ_engC; cd01854 546271002911 GTPase/OB domain interface [polypeptide binding]; other site 546271002912 GTPase/Zn-binding domain interface [polypeptide binding]; other site 546271002913 GTP/Mg2+ binding site [chemical binding]; other site 546271002914 G4 box; other site 546271002915 G5 box; other site 546271002916 G1 box; other site 546271002917 Switch I region; other site 546271002918 G2 box; other site 546271002919 G3 box; other site 546271002920 Switch II region; other site 546271002921 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...; Region: RPE; cd00429 546271002922 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 546271002923 substrate binding site [chemical binding]; other site 546271002924 hexamer interface [polypeptide binding]; other site 546271002925 metal binding site [ion binding]; metal-binding site 546271002926 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 546271002927 Ligand Binding Site [chemical binding]; other site 546271002928 Uncharacterized ACR, COG1469; Region: DUF198; cl00642 546271002929 Predicted integral membrane protein [Function unknown]; Region: COG0392 546271002930 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 546271002931 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 546271002932 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...; Region: TM_PBP2; cd06261 546271002933 dimer interface [polypeptide binding]; other site 546271002934 conserved gate region; other site 546271002935 putative PBP binding loops; other site 546271002936 ABC-ATPase subunit interface; other site 546271002937 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 546271002938 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...; Region: TM_PBP2; cd06261 546271002939 dimer interface [polypeptide binding]; other site 546271002940 conserved gate region; other site 546271002941 putative PBP binding loops; other site 546271002942 ABC-ATPase subunit interface; other site 546271002943 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_3; cd08490 546271002944 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 546271002945 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 546271002946 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 546271002947 Walker A/P-loop; other site 546271002948 ATP binding site [chemical binding]; other site 546271002949 Q-loop/lid; other site 546271002950 ABC transporter signature motif; other site 546271002951 Walker B; other site 546271002952 D-loop; other site 546271002953 H-loop/switch region; other site 546271002954 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 546271002955 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 546271002956 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 546271002957 Walker A/P-loop; other site 546271002958 ATP binding site [chemical binding]; other site 546271002959 Q-loop/lid; other site 546271002960 ABC transporter signature motif; other site 546271002961 Walker B; other site 546271002962 D-loop; other site 546271002963 H-loop/switch region; other site 546271002964 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 546271002965 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 546271002966 MatE; Region: MatE; pfam01554 546271002967 MatE; Region: MatE; pfam01554 546271002968 S-layer homology domain; Region: SLH; pfam00395 546271002969 Trp repressor protein; Region: Trp_repressor; cl01121 546271002970 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 546271002971 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 ATP-dependent...; Region: HisRS-like_core; cd00773 546271002972 dimer interface [polypeptide binding]; other site 546271002973 motif 1; other site 546271002974 active site 546271002975 motif 2; other site 546271002976 motif 3; other site 546271002977 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 546271002978 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 oxidation of L-histidinol to L-...; Region: Histidinol_dh; cd06572 546271002979 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 546271002980 NAD binding site [chemical binding]; other site 546271002981 dimerization interface [polypeptide binding]; other site 546271002982 product binding site; other site 546271002983 substrate binding site [chemical binding]; other site 546271002984 zinc binding site [ion binding]; other site 546271002985 catalytic residues [active] 546271002986 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 546271002987 putative active site pocket [active] 546271002988 4-fold oligomerization interface [polypeptide binding]; other site 546271002989 metal binding residues [ion binding]; metal-binding site 546271002990 3-fold/trimer interface [polypeptide binding]; other site 546271002991 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 546271002992 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 546271002993 putative active site [active] 546271002994 oxyanion strand; other site 546271002995 catalytic triad [active] 546271002996 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 546271002997 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 546271002998 catalytic residues [active] 546271002999 Imidazoleglycerol-phosphate synthase [Amino acid transport and metabolism]; Region: HisF; COG0107 546271003000 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)-formimino-5-; Region: HisF; cd04731 546271003001 substrate binding site [chemical binding]; other site 546271003002 glutamase interaction surface [polypeptide binding]; other site 546271003003 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 546271003004 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 546271003005 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 546271003006 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the...; Region: mcbC-like_oxidoreductase; cd02142 546271003007 putative FMN binding site [chemical binding]; other site 546271003008 NADPH bind site [chemical binding]; other site 546271003009 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 546271003010 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-...; Region: CBS_pair; cl10010 546271003011 DRTGG domain; Region: DRTGG; cl12147 546271003012 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; cl09108 546271003013 DHHA2 domain; Region: DHHA2; pfam02833 546271003014 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 546271003015 UvrD/REP helicase; Region: UvrD-helicase; cl14126 546271003016 UvrD/REP helicase; Region: UvrD-helicase; cl14126 546271003017 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 546271003018 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 546271003019 nucleotide binding pocket [chemical binding]; other site 546271003020 K-X-D-G motif; other site 546271003021 catalytic site [active] 546271003022 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 546271003023 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 546271003024 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 546271003025 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo/...; Region: BRCT; cd00027 546271003026 Dimer interface [polypeptide binding]; other site 546271003027 BRCT sequence motif; other site 546271003028 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...; Region: Alpha_ANH_like_II; cd01993 546271003029 Ligand Binding Site [chemical binding]; other site 546271003030 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 546271003031 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; cl14056 546271003032 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 546271003033 active site 546271003034 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 546271003035 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 546271003036 DXD motif; other site 546271003037 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 546271003038 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 546271003039 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 546271003040 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 546271003041 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 546271003042 active site 546271003043 Riboflavin kinase; Region: Flavokinase; pfam01687 546271003044 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 546271003045 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of...; Region: PseudoU_synth_EcTruB; cd02573 546271003046 RNA binding site [nucleotide binding]; other site 546271003047 active site 546271003048 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 546271003049 DHH family; Region: DHH; pfam01368 546271003050 Ribosome-binding factor A; Region: RBFA; cl00542 546271003051 translation initiation factor IF-2; Validated; Region: infB; PRK05306 546271003052 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 546271003053 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases...; Region: IF2_eIF5B; cd01887 546271003054 G1 box; other site 546271003055 putative GEF interaction site [polypeptide binding]; other site 546271003056 GTP/Mg2+ binding site [chemical binding]; other site 546271003057 Switch I region; other site 546271003058 G2 box; other site 546271003059 G3 box; other site 546271003060 Switch II region; other site 546271003061 G4 box; other site 546271003062 G5 box; other site 546271003063 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...; Region: IF2_mtIF2_II; cd03702 546271003064 Translation-initiation factor 2; Region: IF-2; pfam11987 546271003065 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...; Region: mtIF2_IVc; cd03692 546271003066 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 546271003067 putative RNA binding cleft [nucleotide binding]; other site 546271003068 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 546271003069 NusA N-terminal domain; Region: NusA_N; pfam08529 546271003070 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...; Region: S1_NusA; cd04455 546271003071 RNA binding site [nucleotide binding]; other site 546271003072 homodimer interface [polypeptide binding]; other site 546271003073 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 546271003074 G-X-X-G motif; other site 546271003075 Uncharacterised BCR, YhbC family COG0779; Region: DUF150; pfam02576 546271003076 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members...; Region: Sm_like; cl00259 546271003077 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members...; Region: Sm_like; cl00259 546271003078 Sm1 motif; other site 546271003079 D3 - B interaction site; other site 546271003080 D1 - D2 interaction site; other site 546271003081 Hfq - Hfq interaction site; other site 546271003082 RNA binding pocket [nucleotide binding]; other site 546271003083 Sm2 motif; other site 546271003084 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 546271003085 FAD binding domain; Region: FAD_binding_4; pfam01565 546271003086 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 546271003087 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 546271003088 Dehydratase family; Region: ILVD_EDD; cl00340 546271003089 dihydroxy-acid dehydratase; Region: ilvD; TIGR00110 546271003090 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a...; Region: CobA_CobO_BtuR; cd00561 546271003091 homodimer interface [polypeptide binding]; other site 546271003092 Walker A motif; other site 546271003093 ATP binding site [chemical binding]; other site 546271003094 hydroxycobalamin binding site [chemical binding]; other site 546271003095 Walker B motif; other site 546271003096 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 546271003097 active site 546271003098 catalytic triad [active] 546271003099 oxyanion hole [active] 546271003100 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271003101 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 546271003102 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 546271003103 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 546271003104 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 546271003105 active site 546271003106 putative substrate binding pocket [chemical binding]; other site 546271003107 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 546271003108 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546271003109 oligomerization interface [polypeptide binding]; other site 546271003110 active site 546271003111 NAD+ binding site [chemical binding]; other site 546271003112 Survival protein SurE; Region: SurE; cl00448 546271003113 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 546271003114 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...; Region: Biotinyl_lipoyl_domains; cl11404 546271003115 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 546271003116 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 formation...; Region: AlaRS_core; cd00673 546271003117 motif 1; other site 546271003118 active site 546271003119 motif 2; other site 546271003120 motif 3; other site 546271003121 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 546271003122 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 546271003123 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 546271003124 endonuclease IV; Provisional; Region: PRK01060 546271003125 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 D-arabino-6-...; Region: AP2Ec; cd00019 546271003126 AP (apurinic/apyrimidinic) site pocket; other site 546271003127 DNA interaction; other site 546271003128 Metal-binding active site; metal-binding site 546271003129 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 546271003130 Ligand Binding Site [chemical binding]; other site 546271003131 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; cl09156 546271003132 peptide chain release factor 2; Validated; Region: prfB; PRK00578 546271003133 RF-1 domain; Region: RF-1; cl02875 546271003134 RF-1 domain; Region: RF-1; cl02875 546271003135 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 546271003136 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 546271003137 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 546271003138 nucleotide binding region [chemical binding]; other site 546271003139 ATP-binding site [chemical binding]; other site 546271003140 SEC-C motif; Region: SEC-C; cl12132 546271003141 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 546271003142 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 546271003143 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 546271003144 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 546271003145 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 546271003146 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 546271003147 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546271003148 EamA-like transporter family; Region: EamA; cl01037 546271003149 EamA-like transporter family; Region: EamA; cl01037 546271003150 transketolase; Reviewed; Region: PRK05899 546271003151 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 546271003152 TPP-binding site [chemical binding]; other site 546271003153 dimer interface [polypeptide binding]; other site 546271003154 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 546271003155 PYR/PP interface [polypeptide binding]; other site 546271003156 dimer interface [polypeptide binding]; other site 546271003157 TPP binding site [chemical binding]; other site 546271003158 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 546271003159 aspartate aminotransferase; Provisional; Region: PRK06836 546271003160 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 546271003161 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546271003162 homodimer interface [polypeptide binding]; other site 546271003163 catalytic residue [active] 546271003164 aspartate kinase; Reviewed; Region: PRK06635 546271003165 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 546271003166 putative nucleotide binding site [chemical binding]; other site 546271003167 putative catalytic residues [active] 546271003168 putative Mg ion binding site [ion binding]; other site 546271003169 putative aspartate binding site [chemical binding]; other site 546271003170 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 546271003171 putative allosteric regulatory site; other site 546271003172 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AK-LysC-DapG-like_2; cd04923 546271003173 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 546271003174 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 546271003175 active site 546271003176 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose...; Region: TBP_aldolase_IIB; cd00947 546271003177 hypothetical protein; Provisional; Region: PRK08185 546271003178 intersubunit interface [polypeptide binding]; other site 546271003179 active site 546271003180 zinc binding site [ion binding]; other site 546271003181 Na+ binding site [ion binding]; other site 546271003182 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; cl09108 546271003183 catalytic residue [active] 546271003184 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 546271003185 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 546271003186 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 546271003187 Walker A/P-loop; other site 546271003188 ATP binding site [chemical binding]; other site 546271003189 Q-loop/lid; other site 546271003190 ABC transporter signature motif; other site 546271003191 Walker B; other site 546271003192 D-loop; other site 546271003193 H-loop/switch region; other site 546271003194 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The...; Region: ABC_cobalt_CbiO_domain2; cd03226 546271003195 Walker A/P-loop; other site 546271003196 ATP binding site [chemical binding]; other site 546271003197 Q-loop/lid; other site 546271003198 ABC transporter signature motif; other site 546271003199 Walker B; other site 546271003200 D-loop; other site 546271003201 H-loop/switch region; other site 546271003202 Cobalt transport protein; Region: CbiQ; cl00463 546271003203 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...; Region: OM_channels; cl00284 546271003204 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...; Region: OM_channels; cl00284 546271003205 helicase-exonuclease AddAB, AddA subunit; Region: addA_Gpos; TIGR02785 546271003206 UvrD/REP helicase; Region: UvrD-helicase; cl14126 546271003207 UvrD/REP helicase; Region: UvrD-helicase; cl14126 546271003208 UvrD/REP helicase; Region: UvrD-helicase; cl14126 546271003209 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 546271003210 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 546271003211 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 546271003212 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 546271003213 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 546271003214 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 546271003215 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 546271003216 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; cl12011 546271003217 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 546271003218 putative dimer interface [polypeptide binding]; other site 546271003219 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 546271003220 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...; Region: TM_ABC_iron-siderophores_like; cd06550 546271003221 ABC-ATPase subunit interface; other site 546271003222 dimer interface [polypeptide binding]; other site 546271003223 putative PBP binding regions; other site 546271003224 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 546271003225 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-...; Region: ABC_Metallic_Cations; cd03235 546271003226 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 546271003227 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent...; Region: Oxidoreductase_nitrogenase; cd00316 546271003228 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent...; Region: Oxidoreductase_nitrogenase; cl02775 546271003229 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 546271003230 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 546271003231 nitrogenase iron protein; Region: nifH; TIGR01287 546271003232 Nucleotide-binding sites [chemical binding]; other site 546271003233 Walker A motif; other site 546271003234 Switch I region of nucleotide binding site; other site 546271003235 Fe4S4 binding sites [ion binding]; other site 546271003236 Switch II region of nucleotide binding site; other site 546271003237 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 546271003238 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...; Region: TroA-like; cl00262 546271003239 intersubunit interface [polypeptide binding]; other site 546271003240 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 546271003241 Adenosylcobinamide amidohydrolase; Region: CbiZ; cl00808 546271003242 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271003243 cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442 546271003244 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase...; Region: vWA_Magnesium_chelatase; cd01451 546271003245 metal ion-dependent adhesion site (MIDAS); other site 546271003246 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271003247 magnesium chelatase ATPase subunit I; Region: BchI-ChlI; TIGR02030 546271003248 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 546271003249 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...; Region: TroA-like; cl00262 546271003250 intersubunit interface [polypeptide binding]; other site 546271003251 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 546271003252 FeS/SAM binding site; other site 546271003253 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 546271003254 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...; Region: TroA-like; cl00262 546271003255 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 546271003256 intersubunit interface [polypeptide binding]; other site 546271003257 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 546271003258 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 546271003259 N-terminal plug; other site 546271003260 ligand-binding site [chemical binding]; other site 546271003261 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 546271003262 FeS/SAM binding site; other site 546271003263 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 546271003264 putative active site [active] 546271003265 catalytic residue [active] 546271003266 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 546271003267 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 546271003268 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 546271003269 minor groove reading motif; other site 546271003270 helix-hairpin-helix signature motif; other site 546271003271 substrate binding pocket [chemical binding]; other site 546271003272 active site 546271003273 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 546271003274 DNA binding and oxoG recognition site [nucleotide binding] 546271003275 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 546271003276 active site 546271003277 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 546271003278 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 546271003279 motif II; other site 546271003280 copper exporting ATPase; Provisional; Region: copA; PRK10671 546271003281 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 546271003282 active site 546271003283 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 546271003284 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 546271003285 motif II; other site 546271003286 TRAM domain; Region: TRAM; cl01282 546271003287 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 546271003288 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 546271003289 S-adenosylmethionine binding site [chemical binding]; other site 546271003290 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 546271003291 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 546271003292 GatB domain; Region: GatB_Yqey; cl11497 546271003293 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 546271003294 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 546271003295 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 546271003296 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 546271003297 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 546271003298 PYR/PP interface [polypeptide binding]; other site 546271003299 dimer interface [polypeptide binding]; other site 546271003300 TPP binding site [chemical binding]; other site 546271003301 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 546271003302 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 546271003303 TPP-binding site [chemical binding]; other site 546271003304 dimer interface [polypeptide binding]; other site 546271003305 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 546271003306 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 3-...; Region: IPMI_Swivel; cd01577 546271003307 substrate binding site [chemical binding]; other site 546271003308 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 546271003309 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 546271003310 substrate binding site [chemical binding]; other site 546271003311 ligand binding site [chemical binding]; other site 546271003312 ketol-acid reductoisomerase; Provisional; Region: PRK05479 546271003313 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546271003314 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 546271003315 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 546271003316 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 546271003317 putative valine binding site [chemical binding]; other site 546271003318 dimer interface [polypeptide binding]; other site 546271003319 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 546271003320 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G_bact; cd04170 546271003321 elongation factor G; Reviewed; Region: PRK12740 546271003322 G1 box; other site 546271003323 putative GEF interaction site [polypeptide binding]; other site 546271003324 GTP/Mg2+ binding site [chemical binding]; other site 546271003325 Switch I region; other site 546271003326 G2 box; other site 546271003327 G3 box; other site 546271003328 Switch II region; other site 546271003329 G4 box; other site 546271003330 G5 box; other site 546271003331 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...; Region: EFG_mtEFG_II; cd04088 546271003332 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...; Region: EFG_mtEFG1_IV; cd01434 546271003333 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...; Region: EFG_mtEFG_C; cd03713 546271003334 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 546271003335 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 546271003336 active site 546271003337 multimer interface [polypeptide binding]; other site 546271003338 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 546271003339 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 546271003340 trimer interface [polypeptide binding]; other site 546271003341 putative metal binding site [ion binding]; other site 546271003342 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 546271003343 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 546271003344 active site 546271003345 NTP binding site [chemical binding]; other site 546271003346 metal binding triad [ion binding]; metal-binding site 546271003347 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 546271003348 homoserine kinase; Provisional; Region: PRK01212 546271003349 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 546271003350 homoserine dehydrogenase; Provisional; Region: PRK06349 546271003351 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546271003352 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 546271003353 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 546271003354 hypothetical protein; Provisional; Region: PRK04435 546271003355 C-terminal ACT domain of a small (; 147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains; Region: ACT_PheB-BS; cd04888 546271003356 Domain of unknown function (DUF205); Region: DUF205; cl00410 546271003357 GTP-binding protein Der; Reviewed; Region: PRK00093 546271003358 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA1; cd01894 546271003359 G1 box; other site 546271003360 GTP/Mg2+ binding site [chemical binding]; other site 546271003361 Switch I region; other site 546271003362 G2 box; other site 546271003363 Switch II region; other site 546271003364 G3 box; other site 546271003365 G4 box; other site 546271003366 G5 box; other site 546271003367 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA2; cd01895 546271003368 G1 box; other site 546271003369 GTP/Mg2+ binding site [chemical binding]; other site 546271003370 Switch I region; other site 546271003371 G2 box; other site 546271003372 G3 box; other site 546271003373 Switch II region; other site 546271003374 G4 box; other site 546271003375 G5 box; other site 546271003376 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 546271003377 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...; Region: PDZ_metalloprotease; cd00989 546271003378 Protein of unknown function (DUF512); Region: DUF512; pfam04459 546271003379 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 546271003380 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 546271003381 RNA binding site [nucleotide binding]; other site 546271003382 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 of...; Region: S1_RPS1_repeat_ec3; cd05688 546271003383 RNA binding site [nucleotide binding]; other site 546271003384 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 546271003385 RNA binding site [nucleotide binding]; other site 546271003386 LytB protein; Region: LYTB; cl00507 546271003387 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 546271003388 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 546271003389 putative acyl-acceptor binding pocket; other site 546271003390 cytidylate kinase; Provisional; Region: cmk; PRK00023 546271003391 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 546271003392 CMP-binding site; other site 546271003393 The sites determining sugar specificity; other site 546271003394 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 546271003395 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 5-enolpyruvylshkimate-3-...; Region: EPSP_synthase; cd01556 546271003396 hinge; other site 546271003397 active site 546271003398 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 546271003399 flavoprotein, HI0933 family; Region: TIGR00275 546271003400 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 546271003401 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 546271003402 RNA binding surface [nucleotide binding]; other site 546271003403 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 546271003404 active site 546271003405 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 546271003406 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 546271003407 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 546271003408 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...; Region: DnaE_OBF; cd04485 546271003409 generic binding surface II; other site 546271003410 generic binding surface I; other site 546271003411 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 546271003412 metal binding site [ion binding]; metal-binding site 546271003413 active site 546271003414 I-site; other site 546271003415 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 546271003416 serine O-acetyltransferase; Region: cysE; TIGR01172 546271003417 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 L-...; Region: LbH_SAT; cd03354 546271003418 trimer interface [polypeptide binding]; other site 546271003419 active site 546271003420 substrate binding site [chemical binding]; other site 546271003421 CoA binding site [chemical binding]; other site 546271003422 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 546271003423 CrcB-like protein; Region: CRCB; cl09114 546271003424 benzoate transport; Region: 2A0115; TIGR00895 546271003425 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 546271003426 putative substrate translocation pore; other site 546271003427 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 546271003428 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 546271003429 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 546271003430 dimer interface [polypeptide binding]; other site 546271003431 active site 546271003432 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 546271003433 catalytic residues [active] 546271003434 substrate binding site [chemical binding]; other site 546271003435 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 546271003436 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546271003437 NAD(P) binding pocket [chemical binding]; other site 546271003438 Arginase family; Region: Arginase; cl00306 546271003439 spermidine synthase; Provisional; Region: PRK00811 546271003440 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 546271003441 S-adenosylmethionine binding site [chemical binding]; other site 546271003442 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 546271003443 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 546271003444 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 546271003445 catalytic residue [active] 546271003446 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 546271003447 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 546271003448 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 546271003449 heat shock protein 90; Provisional; Region: PRK05218 546271003450 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 546271003451 Competence-damaged protein; Region: CinA; cl00666 546271003452 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 546271003453 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 546271003454 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 546271003455 FeS/SAM binding site; other site 546271003456 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 546271003457 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 546271003458 Domain of unknown function (DUF814); Region: DUF814; pfam05670 546271003459 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 546271003460 trimer interface [polypeptide binding]; other site 546271003461 active site 546271003462 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members...; Region: Sm_like; cl00259 546271003463 Sm1 motif; other site 546271003464 D3 - B interaction site; other site 546271003465 D1 - D2 interaction site; other site 546271003466 Hfq - Hfq interaction site; other site 546271003467 RNA binding pocket [nucleotide binding]; other site 546271003468 Sm2 motif; other site 546271003469 IPP transferase; Region: IPPT; cl00403 546271003470 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 546271003471 Thiamine pyrophosphokinase; Region: TPK; cd07995 546271003472 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 546271003473 active site 546271003474 dimerization interface [polypeptide binding]; other site 546271003475 thiamine binding site [chemical binding]; other site 546271003476 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 546271003477 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 546271003478 23S rRNA binding site [nucleotide binding]; other site 546271003479 L21 binding site [polypeptide binding]; other site 546271003480 L13 binding site [polypeptide binding]; other site 546271003481 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 546271003482 translation initiation factor IF-3; Region: infC; TIGR00168 546271003483 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 546271003484 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 546271003485 Cell division protein ZapA; Region: ZapA; cl01146 546271003486 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 546271003487 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 546271003488 putative tRNA-binding site [nucleotide binding]; other site 546271003489 B3/4 domain; Region: B3_4; cl11458 546271003490 tRNA synthetase B5 domain; Region: B5; cl08394 546271003491 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 546271003492 dimer interface [polypeptide binding]; other site 546271003493 motif 1; other site 546271003494 motif 3; other site 546271003495 motif 2; other site 546271003496 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 546271003497 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 546271003498 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 546271003499 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 546271003500 dimer interface [polypeptide binding]; other site 546271003501 motif 1; other site 546271003502 active site 546271003503 motif 2; other site 546271003504 motif 3; other site 546271003505 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...; Region: TroA-like; cl00262 546271003506 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 546271003507 intersubunit interface [polypeptide binding]; other site 546271003508 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 546271003509 DNA binding site [nucleotide binding] 546271003510 dimer interface [polypeptide binding]; other site 546271003511 Int/Topo IB signature motif; other site 546271003512 active site 546271003513 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 546271003514 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 546271003515 Zn2+ binding site [ion binding]; other site 546271003516 Mg2+ binding site [ion binding]; other site 546271003517 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 546271003518 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 546271003519 homodimer interaction site [polypeptide binding]; other site 546271003520 cofactor binding site; other site 546271003521 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 546271003522 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 546271003523 active site 546271003524 HIGH motif; other site 546271003525 nucleotide binding site [chemical binding]; other site 546271003526 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 546271003527 active site 546271003528 KMSKS motif; other site 546271003529 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 546271003530 tRNA binding surface [nucleotide binding]; other site 546271003531 anticodon binding site; other site 546271003532 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...; Region: OM_channels; cl00284 546271003533 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...; Region: OM_channels; cl00284 546271003534 Chain length determinant protein; Region: Wzz; cl01623 546271003535 OPT oligopeptide transporter protein; Region: OPT; cl14607 546271003536 putative oligopeptide transporter, OPT family; Region: TIGR00733 546271003537 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 546271003538 RelB antitoxin; Region: RelB; cl01171 546271003539 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 546271003540 C-terminal peptidase (prc); Region: prc; TIGR00225 546271003541 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 546271003542 protein binding site [polypeptide binding]; other site 546271003543 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 546271003544 Catalytic dyad [active] 546271003545 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 546271003546 Peptidase family M23; Region: Peptidase_M23; pfam01551 546271003547 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 546271003548 FtsX-like permease family; Region: FtsX; pfam02687 546271003549 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 546271003550 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271003551 Walker A/P-loop; other site 546271003552 ATP binding site [chemical binding]; other site 546271003553 Q-loop/lid; other site 546271003554 ABC transporter signature motif; other site 546271003555 Walker B; other site 546271003556 D-loop; other site 546271003557 H-loop/switch region; other site 546271003558 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 546271003559 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 546271003560 dimerization interface [polypeptide binding]; other site 546271003561 allosteric effector site; other site 546271003562 active site 546271003563 ADP/pyrophosphate binding site [chemical binding]; other site 546271003564 fructose-1,6-bisphosphate binding site; other site 546271003565 aspartate aminotransferase; Provisional; Region: PRK06836 546271003566 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 546271003567 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546271003568 homodimer interface [polypeptide binding]; other site 546271003569 catalytic residue [active] 546271003570 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 546271003571 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 546271003572 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 546271003573 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 546271003574 G1 box; other site 546271003575 GTP/Mg2+ binding site [chemical binding]; other site 546271003576 Switch I region; other site 546271003577 G2 box; other site 546271003578 G3 box; other site 546271003579 Switch II region; other site 546271003580 G4 box; other site 546271003581 G5 box; other site 546271003582 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 546271003583 Found in ATP-dependent protease La (LON); Region: LON; cl01056 546271003584 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...; Region: AAA; cd00009 546271003585 Walker A motif; other site 546271003586 ATP binding site [chemical binding]; other site 546271003587 Walker B motif; other site 546271003588 arginine finger; other site 546271003589 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 546271003590 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 546271003591 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 546271003592 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...; Region: AAA; cd00009 546271003593 Walker A motif; other site 546271003594 ATP binding site [chemical binding]; other site 546271003595 Walker B motif; other site 546271003596 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 546271003597 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 546271003598 oligomer interface [polypeptide binding]; other site 546271003599 active site residues [active] 546271003600 trigger factor; Provisional; Region: tig; PRK01490 546271003601 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 546271003602 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 546271003603 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 546271003604 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 546271003605 active site 546271003606 metal binding site [ion binding]; metal-binding site 546271003607 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 546271003608 Protein of unknown function (DUF2612); Region: DUF2612; pfam11041 546271003609 Baseplate J-like protein; Region: Baseplate_J; cl01294 546271003610 Protein of unknown function (DUF3277); Region: DUF3277; pfam11681 546271003611 Protein of unknown function (DUF3383); Region: DUF3383; pfam11863 546271003612 Protein of unknown function (DUF3383); Region: DUF3383; pfam11863 546271003613 Encapsulating protein for peroxidase; Region: Linocin_M18; cl12047 546271003614 Uncharacterized protein conserved in bacteria (DUF2184); Region: DUF2184; pfam09950 546271003615 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; pfam09979 546271003616 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 546271003617 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3567; cl12082 546271003618 Protein of unknown function (DUF1073); Region: DUF1073; pfam06381 546271003619 Phage terminase large subunit; Region: Terminase_3; cl12054 546271003620 Terminase-like family; Region: Terminase_6; pfam03237 546271003621 BRO family, N-terminal domain; Region: Bro-N; pfam02498 546271003622 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 546271003623 non-specific DNA binding site [nucleotide binding]; other site 546271003624 salt bridge; other site 546271003625 sequence-specific DNA binding site [nucleotide binding]; other site 546271003626 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 546271003627 Endodeoxyribonuclease RusA; Region: RusA; cl01885 546271003628 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 546271003629 dimer interface [polypeptide binding]; other site 546271003630 ssDNA binding site [nucleotide binding]; other site 546271003631 tetramer (dimer of dimers) interface [polypeptide binding]; other site 546271003632 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl01450 546271003633 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 546271003634 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...; Region: AAA; cd00009 546271003635 Walker A motif; other site 546271003636 ATP binding site [chemical binding]; other site 546271003637 Walker B motif; other site 546271003638 arginine finger; other site 546271003639 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; cl09889 546271003640 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 546271003641 RecT family; Region: RecT; cl04285 546271003642 Phage-related protein, predicted endonuclease [DNA replication, recombination, and repair]; Region: COG5377 546271003643 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 546271003644 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 546271003645 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 546271003646 bifunctional HTH-domain containing protein/aminotransferase; Provisional; Region: PRK13355 546271003647 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 546271003648 non-specific DNA binding site [nucleotide binding]; other site 546271003649 salt bridge; other site 546271003650 sequence-specific DNA binding site [nucleotide binding]; other site 546271003651 PemK-like protein; Region: PemK; cl00995 546271003652 Domain of unknown function (DUF955); Region: DUF955; cl01076 546271003653 PemK-like protein; Region: PemK; cl00995 546271003654 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 546271003655 Phage integrase family; Region: Phage_integrase; pfam00589 546271003656 Int/Topo IB signature motif; other site 546271003657 putative lipid kinase; Reviewed; Region: PRK13059 546271003658 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 546271003659 stage V sporulation protein B; Region: spore_V_B; TIGR02900 546271003660 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 546271003661 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the...; Region: HIT_like; cl00228 546271003662 nucleotide binding site/active site [active] 546271003663 HIT family signature motif; other site 546271003664 catalytic residue [active] 546271003665 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...; Region: Dtyr_deacylase; cd00563 546271003666 putative active site [active] 546271003667 dimerization interface [polypeptide binding]; other site 546271003668 putative tRNAtyr binding site [nucleotide binding]; other site 546271003669 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 546271003670 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 546271003671 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 546271003672 2-isopropylmalate synthase; Validated; Region: PRK03739 546271003673 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 546271003674 active site 546271003675 catalytic residues [active] 546271003676 metal binding site [ion binding]; metal-binding site 546271003677 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 546271003678 YgiT-type zinc finger domain; Region: YgiT_finger; TIGR03831 546271003679 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 546271003680 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 546271003681 active site 546271003682 HIGH motif; other site 546271003683 dimer interface [polypeptide binding]; other site 546271003684 KMSKS motif; other site 546271003685 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 546271003686 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of...; Region: ThiF_MoeB_HesA_family; cd00757 546271003687 ATP binding site [chemical binding]; other site 546271003688 substrate interface [chemical binding]; other site 546271003689 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 546271003690 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 546271003691 N-terminal plug; other site 546271003692 ligand-binding site [chemical binding]; other site 546271003693 Gram-negative bacterial tonB protein; Region: TonB; cl10048 546271003694 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 546271003695 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 546271003696 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 546271003697 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...; Region: TroA-like; cl00262 546271003698 intersubunit interface [polypeptide binding]; other site 546271003699 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 546271003700 Protein of unknown function (DUF322); Region: DUF322; cl00574 546271003701 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 546271003702 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 546271003703 Stage V sporulation protein S (SpoVS); Region: SpoVS; cl01005 546271003704 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 546271003705 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 546271003706 putative active site [active] 546271003707 metal binding site [ion binding]; metal-binding site 546271003708 homodimer binding site [polypeptide binding]; other site 546271003709 phosphodiesterase; Provisional; Region: PRK12704 546271003710 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 546271003711 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 546271003712 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_I; cd01990 546271003713 Ligand Binding Site [chemical binding]; other site 546271003714 Uncharacterized conserved protein [Function unknown]; Region: COG1641; cl03398 546271003715 Protein of unknown function DUF111; Region: DUF111; pfam01969 546271003716 AIR carboxylase; Region: AIRC; cl00310 546271003717 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 546271003718 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 546271003719 active site 546271003720 (T/H)XGH motif; other site 546271003721 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 546271003722 S-adenosylmethionine binding site [chemical binding]; other site 546271003723 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 546271003724 Cation efflux family; Region: Cation_efflux; cl00316 546271003725 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 546271003726 oligomer interface [polypeptide binding]; other site 546271003727 putative active site [active] 546271003728 metal binding site [ion binding]; metal-binding site 546271003729 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 546271003730 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...; Region: DUS_like_FMN; cd02801 546271003731 FMN binding site [chemical binding]; other site 546271003732 active site 546271003733 catalytic residues [active] 546271003734 substrate binding site [chemical binding]; other site 546271003735 Bordetella pertussis Bvg accessory factor family; Region: Bvg_acc_factor; cl09130 546271003736 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 546271003737 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 546271003738 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 546271003739 FtsH Extracellular; Region: FtsH_ext; pfam06480 546271003740 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 546271003741 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...; Region: AAA; cd00009 546271003742 Walker A motif; other site 546271003743 ATP binding site [chemical binding]; other site 546271003744 Walker B motif; other site 546271003745 arginine finger; other site 546271003746 Peptidase family M41; Region: Peptidase_M41; pfam01434 546271003747 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 546271003748 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 546271003749 Walker A/P-loop; other site 546271003750 ATP binding site [chemical binding]; other site 546271003751 Q-loop/lid; other site 546271003752 ABC transporter signature motif; other site 546271003753 Walker B; other site 546271003754 D-loop; other site 546271003755 H-loop/switch region; other site 546271003756 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 546271003757 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 546271003758 Zn2+ binding site [ion binding]; other site 546271003759 Mg2+ binding site [ion binding]; other site 546271003760 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 546271003761 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 546271003762 Zn2+ binding site [ion binding]; other site 546271003763 Mg2+ binding site [ion binding]; other site 546271003764 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 546271003765 Zn2+ binding site [ion binding]; other site 546271003766 Mg2+ binding site [ion binding]; other site 546271003767 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 546271003768 Clp amino terminal domain; Region: Clp_N; pfam02861 546271003769 Clp amino terminal domain; Region: Clp_N; pfam02861 546271003770 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...; Region: AAA; cd00009 546271003771 Walker A motif; other site 546271003772 ATP binding site [chemical binding]; other site 546271003773 Walker B motif; other site 546271003774 arginine finger; other site 546271003775 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...; Region: AAA; cd00009 546271003776 Walker A motif; other site 546271003777 ATP binding site [chemical binding]; other site 546271003778 Walker B motif; other site 546271003779 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 546271003780 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 546271003781 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 546271003782 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and...; Region: Chelatase_Class_II; cl02784 546271003783 active site 546271003784 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 546271003785 active site 546271003786 N-terminal domain interface [polypeptide binding]; other site 546271003787 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 546271003788 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 546271003789 metal-binding site [ion binding] 546271003790 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 546271003791 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; cl11391 546271003792 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 546271003793 metal-binding site [ion binding] 546271003794 M28, and M42; Region: Zinc_peptidase_like; cl14876 546271003795 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 546271003796 metal binding site [ion binding]; metal-binding site 546271003797 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 546271003798 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 546271003799 Walker A/P-loop; other site 546271003800 ATP binding site [chemical binding]; other site 546271003801 Q-loop/lid; other site 546271003802 ABC transporter signature motif; other site 546271003803 Walker B; other site 546271003804 D-loop; other site 546271003805 H-loop/switch region; other site 546271003806 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 546271003807 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 546271003808 Walker A/P-loop; other site 546271003809 ATP binding site [chemical binding]; other site 546271003810 Q-loop/lid; other site 546271003811 ABC transporter signature motif; other site 546271003812 Walker B; other site 546271003813 D-loop; other site 546271003814 H-loop/switch region; other site 546271003815 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 546271003816 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...; Region: TM_PBP2; cd06261 546271003817 dimer interface [polypeptide binding]; other site 546271003818 conserved gate region; other site 546271003819 putative PBP binding loops; other site 546271003820 ABC-ATPase subunit interface; other site 546271003821 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 546271003822 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...; Region: TM_PBP2; cd06261 546271003823 dimer interface [polypeptide binding]; other site 546271003824 conserved gate region; other site 546271003825 putative PBP binding loops; other site 546271003826 ABC-ATPase subunit interface; other site 546271003827 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_19; cd08518 546271003828 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 546271003829 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 546271003830 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 546271003831 putative FMN binding site [chemical binding]; other site 546271003832 beta-N-acetylglucosaminidase; Region: NAGidase; pfam07555 546271003833 CTP synthetase; Validated; Region: pyrG; PRK05380 546271003834 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...; Region: CTGs; cd03113 546271003835 Catalytic site [active] 546271003836 Active site [active] 546271003837 UTP binding site [chemical binding]; other site 546271003838 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 546271003839 active site 546271003840 putative oxyanion hole; other site 546271003841 catalytic triad [active] 546271003842 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; cl01319 546271003843 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 546271003844 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 546271003845 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 546271003846 active site 546271003847 HIGH motif; other site 546271003848 KMSK motif region; other site 546271003849 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 546271003850 tRNA binding surface [nucleotide binding]; other site 546271003851 anticodon binding site; other site 546271003852 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 546271003853 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 546271003854 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 546271003855 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 546271003856 active site 546271003857 nucleophile elbow; other site 546271003858 prolyl-tRNA synthetase; Provisional; Region: PRK09194 546271003859 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 formation...; Region: ProRS_core_prok; cd00779 546271003860 dimer interface [polypeptide binding]; other site 546271003861 motif 1; other site 546271003862 active site 546271003863 motif 2; other site 546271003864 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 single-...; Region: ProRS-INS; cd04334 546271003865 putative deacylase active site [active] 546271003866 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 546271003867 active site 546271003868 motif 3; other site 546271003869 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-...; Region: ProRS_anticodon_short; cd00861 546271003870 anticodon binding site; other site 546271003871 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 546271003872 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 546271003873 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 546271003874 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 546271003875 active site 546271003876 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...; Region: PDZ_metalloprotease; cd00989 546271003877 protein binding site [polypeptide binding]; other site 546271003878 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 546271003879 putative substrate binding region [chemical binding]; other site 546271003880 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 546271003881 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 546271003882 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 546271003883 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 546271003884 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 546271003885 catalytic residue [active] 546271003886 putative FPP diphosphate binding site; other site 546271003887 putative FPP binding hydrophobic cleft; other site 546271003888 dimer interface [polypeptide binding]; other site 546271003889 putative IPP diphosphate binding site; other site 546271003890 primosome assembly protein PriA; Validated; Region: PRK05580 546271003891 primosome assembly protein PriA; Validated; Region: PRK05580 546271003892 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 546271003893 ATP binding site [chemical binding]; other site 546271003894 putative Mg++ binding site [ion binding]; other site 546271003895 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; cl14882 546271003896 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 546271003897 3D domain; Region: 3D; cl01439 546271003898 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 546271003899 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 546271003900 RimM N-terminal domain; Region: RimM; pfam01782 546271003901 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to...; Region: PRCH; cl09959 546271003902 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 546271003903 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837; cl00794 546271003904 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 546271003905 signal recognition particle protein; Provisional; Region: PRK10867 546271003906 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 546271003907 P loop; other site 546271003908 GTP binding site [chemical binding]; other site 546271003909 Signal peptide binding domain; Region: SRP_SPB; pfam02978 546271003910 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...; Region: Sigma70_r4; cl01055 546271003911 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 546271003912 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 546271003913 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-...; Region: LysRS_N; cd04322 546271003914 dimer interface [polypeptide binding]; other site 546271003915 putative anticodon binding site; other site 546271003916 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 546271003917 motif 1; other site 546271003918 active site 546271003919 motif 2; other site 546271003920 motif 3; other site 546271003921 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 546271003922 domain; Region: GreA_GreB_N; pfam03449 546271003923 C-term; Region: GreA_GreB; pfam01272 546271003924 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 546271003925 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 546271003926 active site 546271003927 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 546271003928 Fic/DOC family; Region: Fic; cl00960 546271003929 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 546271003930 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 546271003931 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 alpha-...; Region: BCAT_beta_family; cd01557 546271003932 homodimer interface [polypeptide binding]; other site 546271003933 substrate-cofactor binding pocket; other site 546271003934 catalytic residue [active] 546271003935 Autotransporter beta-domain; Region: Autotransporter; cl02365 546271003936 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 546271003937 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 546271003938 S-adenosylmethionine binding site [chemical binding]; other site 546271003939 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 546271003940 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 546271003941 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 546271003942 alphaNTD - beta interaction site [polypeptide binding]; other site 546271003943 alphaNTD homodimer interface [polypeptide binding]; other site 546271003944 alphaNTD - beta' interaction site [polypeptide binding]; other site 546271003945 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 546271003946 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 546271003947 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 546271003948 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 546271003949 RNA binding surface [nucleotide binding]; other site 546271003950 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 546271003951 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 546271003952 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 546271003953 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 546271003954 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 546271003955 rRNA binding site [nucleotide binding]; other site 546271003956 predicted 30S ribosome binding site; other site 546271003957 adenylate kinase; Reviewed; Region: adk; PRK00279 546271003958 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 546271003959 AMP-binding site [chemical binding]; other site 546271003960 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 546271003961 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 546271003962 SecY translocase; Region: SecY; pfam00344 546271003963 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 546271003964 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...; Region: Ribosomal_L30; cd01658 546271003965 23S rRNA binding site [nucleotide binding]; other site 546271003966 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 546271003967 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 546271003968 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 546271003969 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 546271003970 5S rRNA interface [nucleotide binding]; other site 546271003971 L27 interface [polypeptide binding]; other site 546271003972 23S rRNA interface [nucleotide binding]; other site 546271003973 L5 interface [polypeptide binding]; other site 546271003974 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 546271003975 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 546271003976 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 546271003977 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 546271003978 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 546271003979 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 546271003980 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 546271003981 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 546271003982 KOW motif; Region: KOW; cl00354 546271003983 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 546271003984 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 546271003985 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...; Region: Ribosomal_L29_HIP; cd00427 546271003986 23S rRNA interface [nucleotide binding]; other site 546271003987 putative translocon interaction site; other site 546271003988 signal recognition particle (SRP54) interaction site; other site 546271003989 L23 interface [polypeptide binding]; other site 546271003990 trigger factor interaction site; other site 546271003991 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 546271003992 23S rRNA interface [nucleotide binding]; other site 546271003993 5S rRNA interface [nucleotide binding]; other site 546271003994 putative antibiotic binding site [chemical binding]; other site 546271003995 L25 interface [polypeptide binding]; other site 546271003996 L27 interface [polypeptide binding]; other site 546271003997 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 546271003998 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...; Region: 30S_S3_KH; cd02412 546271003999 G-X-X-G motif; other site 546271004000 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 546271004001 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 546271004002 putative translocon binding site; other site 546271004003 protein-rRNA interface [nucleotide binding]; other site 546271004004 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 546271004005 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 546271004006 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 546271004007 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 546271004008 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 546271004009 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 546271004010 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 546271004011 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 546271004012 elongation factor Tu; Reviewed; Region: PRK00049 546271004013 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 546271004014 G1 box; other site 546271004015 GEF interaction site [polypeptide binding]; other site 546271004016 GTP/Mg2+ binding site [chemical binding]; other site 546271004017 Switch I region; other site 546271004018 G2 box; other site 546271004019 G3 box; other site 546271004020 Switch II region; other site 546271004021 G4 box; other site 546271004022 G5 box; other site 546271004023 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 546271004024 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 546271004025 Antibiotic Binding Site [chemical binding]; other site 546271004026 elongation factor G; Reviewed; Region: PRK00007 546271004027 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 546271004028 G1 box; other site 546271004029 putative GEF interaction site [polypeptide binding]; other site 546271004030 GTP/Mg2+ binding site [chemical binding]; other site 546271004031 Switch I region; other site 546271004032 G2 box; other site 546271004033 G3 box; other site 546271004034 Switch II region; other site 546271004035 G4 box; other site 546271004036 G5 box; other site 546271004037 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...; Region: EFG_mtEFG_II; cd04088 546271004038 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...; Region: EFG_mtEFG1_IV; cd01434 546271004039 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...; Region: EFG_mtEFG_C; cd03713 546271004040 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 546271004041 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 546271004042 S17 interaction site [polypeptide binding]; other site 546271004043 S8 interaction site; other site 546271004044 16S rRNA interaction site [nucleotide binding]; other site 546271004045 streptomycin interaction site [chemical binding]; other site 546271004046 23S rRNA interaction site [nucleotide binding]; other site 546271004047 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 546271004048 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 546271004049 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 546271004050 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 546271004051 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 546271004052 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 546271004053 active site 546271004054 metal binding site [ion binding]; metal-binding site 546271004055 homotetramer interface [polypeptide binding]; other site 546271004056 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 546271004057 homopentamer interface [polypeptide binding]; other site 546271004058 active site 546271004059 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_3; cd03140 546271004060 conserved cys residue [active] 546271004061 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 546271004062 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 546271004063 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 546271004064 dimerization interface [polypeptide binding]; other site 546271004065 active site 546271004066 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 546271004067 Lumazine binding domain; Region: Lum_binding; pfam00677 546271004068 Lumazine binding domain; Region: Lum_binding; pfam00677 546271004069 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 546271004070 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 546271004071 catalytic motif [active] 546271004072 Zn binding site [ion binding]; other site 546271004073 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5,10-...; Region: DHFR; cl00161 546271004074 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 546271004075 NlpC/P60 family; Region: NLPC_P60; cl11438 546271004076 Uncharacterized conserved protein [Function unknown]; Region: COG0327 546271004077 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl01309 546271004078 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; cl12011 546271004079 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 546271004080 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 546271004081 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 546271004082 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 546271004083 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 546271004084 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...; Region: Sigma70_r4; cl01055 546271004085 DNA primase; Validated; Region: dnaG; PRK05667 546271004086 CHC2 zinc finger; Region: zf-CHC2; cl02597 546271004087 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 546271004088 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 546271004089 active site 546271004090 metal binding site [ion binding]; metal-binding site 546271004091 interdomain interaction site; other site 546271004092 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 546271004093 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 546271004094 Zn2+ binding site [ion binding]; other site 546271004095 Mg2+ binding site [ion binding]; other site 546271004096 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 546271004097 OstA-like protein; Region: OstA; cl00844 546271004098 Domain of unknown function (DUF389); Region: DUF389; cl00781 546271004099 tryptophan synthase, beta chain; Region: PLN02618 546271004100 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 546271004101 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546271004102 catalytic residue [active] 546271004103 Peptidase family M48; Region: Peptidase_M48; cl12018 546271004104 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 546271004105 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 546271004106 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 546271004107 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 546271004108 Double zinc ribbon; Region: DZR; pfam12773 546271004109 Domain of unknown function (DUF477); Region: DUF477; cl01535 546271004110 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 546271004111 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 546271004112 putative active site [active] 546271004113 putative metal binding site [ion binding]; other site 546271004114 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...; Region: TRX_Fd_NuoE; cd03064 546271004115 putative dimer interface [polypeptide binding]; other site 546271004116 [2Fe-2S] cluster binding site [ion binding]; other site 546271004117 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 546271004118 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 546271004119 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 546271004120 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 546271004121 catalytic loop [active] 546271004122 iron binding site [ion binding]; other site 546271004123 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 546271004124 hydrogenase, Fe-only; Region: Fe_only_hydrog; TIGR02512 546271004125 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 alpha-; Region: HCP_like; cl14655 546271004126 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 546271004127 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 546271004128 Uncharacterized conserved protein [Function unknown]; Region: COG2966 546271004129 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 546271004130 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 546271004131 Uncharacterized conserved protein [Function unknown]; Region: COG2966 546271004132 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 546271004133 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 546271004134 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 546271004135 active site 546271004136 phosphorylation site [posttranslational modification] 546271004137 intermolecular recognition site; other site 546271004138 dimerization interface [polypeptide binding]; other site 546271004139 LytTr DNA-binding domain; Region: LytTR; cl04498 546271004140 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 546271004141 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 546271004142 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546271004143 CoA-ligase; Region: Ligase_CoA; pfam00549 546271004144 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 546271004145 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 546271004146 CoA-ligase; Region: Ligase_CoA; pfam00549 546271004147 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 546271004148 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose 5-...; Region: SIS_Kpsf; cd05014 546271004149 putative active site [active] 546271004150 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 546271004151 Carbon starvation protein CstA; Region: CstA; cl00856 546271004152 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs)...; Region: Era_like; cd00880 546271004153 G1 box; other site 546271004154 GTP/Mg2+ binding site [chemical binding]; other site 546271004155 Switch I region; other site 546271004156 G2 box; other site 546271004157 Switch II region; other site 546271004158 G3 box; other site 546271004159 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 546271004160 B12 binding site [chemical binding]; other site 546271004161 Radical SAM; Region: Elp3; smart00729 546271004162 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 546271004163 FeS/SAM binding site; other site 546271004164 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 546271004165 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 546271004166 FeS/SAM binding site; other site 546271004167 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 546271004168 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs)...; Region: Era_like; cd00880 546271004169 G1 box; other site 546271004170 GTP/Mg2+ binding site [chemical binding]; other site 546271004171 Switch I region; other site 546271004172 G2 box; other site 546271004173 Switch II region; other site 546271004174 G3 box; other site 546271004175 G4 box; other site 546271004176 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs)...; Region: Era_like; cd00880 546271004177 G1 box; other site 546271004178 GTP/Mg2+ binding site [chemical binding]; other site 546271004179 Switch II region; other site 546271004180 G3 box; other site 546271004181 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 546271004182 non-specific DNA binding site [nucleotide binding]; other site 546271004183 salt bridge; other site 546271004184 sequence-specific DNA binding site [nucleotide binding]; other site 546271004185 Catalytic domain of Protein Kinases; Region: PKc; cd00180 546271004186 active site 546271004187 ATP binding site [chemical binding]; other site 546271004188 substrate binding site [chemical binding]; other site 546271004189 activation loop (A-loop); other site 546271004190 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 546271004191 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 546271004192 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 connected by an extended linker. The...; Region: HAMP; cl01054 546271004193 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 546271004194 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 546271004195 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 546271004196 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 546271004197 FtsX-like permease family; Region: FtsX; pfam02687 546271004198 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 546271004199 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 546271004200 Walker A/P-loop; other site 546271004201 ATP binding site [chemical binding]; other site 546271004202 Q-loop/lid; other site 546271004203 ABC transporter signature motif; other site 546271004204 Walker B; other site 546271004205 D-loop; other site 546271004206 H-loop/switch region; other site 546271004207 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 546271004208 Outer membrane efflux protein; Region: OEP; pfam02321 546271004209 Outer membrane efflux protein; Region: OEP; pfam02321 546271004210 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 546271004211 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 546271004212 ATP binding site [chemical binding]; other site 546271004213 putative Mg++ binding site [ion binding]; other site 546271004214 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 546271004215 nucleotide binding region [chemical binding]; other site 546271004216 ATP-binding site [chemical binding]; other site 546271004217 RQC domain; Region: RQC; pfam09382 546271004218 HRDC domain; Region: HRDC; cl02578 546271004219 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 546271004220 putative substrate translocation pore; other site 546271004221 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 546271004222 Sulfate transporter family; Region: Sulfate_transp; cl00967 546271004223 Permease family; Region: Xan_ur_permease; pfam00860 546271004224 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 546271004225 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 546271004226 trimer interface [polypeptide binding]; other site 546271004227 putative metal binding site [ion binding]; other site 546271004228 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 546271004229 Recombination protein O N terminal; Region: RecO_N; pfam11967 546271004230 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 546271004231 Recombination protein O C terminal; Region: RecO_C; pfam02565 546271004232 Protein of unknown function (DUF502); Region: DUF502; cl01107 546271004233 GTPase Era; Reviewed; Region: era; PRK00089 546271004234 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit...; Region: Era; cd04163 546271004235 G1 box; other site 546271004236 GTP/Mg2+ binding site [chemical binding]; other site 546271004237 Switch I region; other site 546271004238 G2 box; other site 546271004239 Switch II region; other site 546271004240 G3 box; other site 546271004241 G4 box; other site 546271004242 G5 box; other site 546271004243 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains...; Region: KH-I; cl00098 546271004244 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 546271004245 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 546271004246 PhoH-like protein; Region: PhoH; cl12134 546271004247 biotin synthase; Validated; Region: PRK06256 546271004248 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 546271004249 FeS/SAM binding site; other site 546271004250 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 546271004251 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 546271004252 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 546271004253 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 546271004254 Uncharacterized conserved protein [Function unknown]; Region: COG1284 546271004255 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 546271004256 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 546271004257 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 546271004258 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 546271004259 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 546271004260 Ligand binding site [chemical binding]; other site 546271004261 Putative Catalytic site [active] 546271004262 DXD motif; other site 546271004263 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 trans-...; Region: HisKA; cd00082 546271004264 dimer interface [polypeptide binding]; other site 546271004265 phosphorylation site [posttranslational modification] 546271004266 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 546271004267 ATP binding site [chemical binding]; other site 546271004268 Mg2+ binding site [ion binding]; other site 546271004269 G-X-G motif; other site 546271004270 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 546271004271 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 546271004272 active site 546271004273 phosphorylation site [posttranslational modification] 546271004274 intermolecular recognition site; other site 546271004275 dimerization interface [polypeptide binding]; other site 546271004276 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...; Region: trans_reg_C; cd00383 546271004277 DNA binding site [nucleotide binding] 546271004278 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 546271004279 synthetase active site [active] 546271004280 NTP binding site [chemical binding]; other site 546271004281 metal binding site [ion binding]; metal-binding site 546271004282 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 546271004283 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 546271004284 S-adenosylmethionine binding site [chemical binding]; other site 546271004285 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 546271004286 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...; Region: AAA; cd00009 546271004287 Walker A motif; other site 546271004288 ATP binding site [chemical binding]; other site 546271004289 Walker B motif; other site 546271004290 arginine finger; other site 546271004291 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 546271004292 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 546271004293 Divergent AAA domain; Region: AAA_4; pfam04326 546271004294 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 546271004295 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271004296 Walker A motif; other site 546271004297 ATP binding site [chemical binding]; other site 546271004298 Walker B motif; other site 546271004299 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 546271004300 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 546271004301 putative active site [active] 546271004302 PAS fold; Region: PAS_3; pfam08447 546271004303 heme pocket [chemical binding]; other site 546271004304 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 546271004305 metal binding site [ion binding]; metal-binding site 546271004306 active site 546271004307 I-site; other site 546271004308 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 546271004309 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; cl09110 546271004310 DctM-like transporters; Region: DctM; pfam06808 546271004311 Domain of unknown function (DUF1850); Region: DUF1850; cl01950 546271004312 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 546271004313 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 546271004314 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 546271004315 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-...; Region: YgdL_like; cd00755 546271004316 putative ATP binding site [chemical binding]; other site 546271004317 putative substrate interface [chemical binding]; other site 546271004318 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...; Region: FtsZ_type1; cd02201 546271004319 nucleotide binding site [chemical binding]; other site 546271004320 SulA interaction site; other site 546271004321 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 546271004322 EamA-like transporter family; Region: EamA; cl01037 546271004323 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 546271004324 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain...; Region: BFIT_BACH; cd03442 546271004325 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 546271004326 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal...; Region: PurM-like; cl10019 546271004327 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 546271004328 dimerization interface [polypeptide binding]; other site 546271004329 ATP binding site [chemical binding]; other site 546271004330 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 546271004331 dimerization interface [polypeptide binding]; other site 546271004332 ATP binding site [chemical binding]; other site 546271004333 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 546271004334 putative active site [active] 546271004335 catalytic triad [active] 546271004336 Domain of unknown function (DUF386); Region: DUF386; cl01047 546271004337 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 546271004338 aspartate aminotransferase; Provisional; Region: PRK08361 546271004339 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 546271004340 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546271004341 homodimer interface [polypeptide binding]; other site 546271004342 catalytic residue [active] 546271004343 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 546271004344 Domain of unknown function DUF20; Region: UPF0118; cl00465 546271004345 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 546271004346 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 546271004347 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 546271004348 glycyl-tRNA synthetase, tetrameric type, alpha subunit; Region: glyQ; TIGR00388 546271004349 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 546271004350 dimer interface [polypeptide binding]; other site 546271004351 motif 1; other site 546271004352 active site 546271004353 motif 2; other site 546271004354 motif 3; other site 546271004355 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 546271004356 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 546271004357 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271004358 Walker A/P-loop; other site 546271004359 ATP binding site [chemical binding]; other site 546271004360 Q-loop/lid; other site 546271004361 ABC transporter signature motif; other site 546271004362 Walker B; other site 546271004363 D-loop; other site 546271004364 H-loop/switch region; other site 546271004365 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 546271004366 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 546271004367 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271004368 Walker A/P-loop; other site 546271004369 ATP binding site [chemical binding]; other site 546271004370 Q-loop/lid; other site 546271004371 ABC transporter signature motif; other site 546271004372 Walker B; other site 546271004373 D-loop; other site 546271004374 H-loop/switch region; other site 546271004375 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 546271004376 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 546271004377 dimer interface [polypeptide binding]; other site 546271004378 PYR/PP interface [polypeptide binding]; other site 546271004379 TPP binding site [chemical binding]; other site 546271004380 substrate binding site [chemical binding]; other site 546271004381 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 546271004382 Domain of unknown function; Region: EKR; pfam10371 546271004383 4Fe-4S binding domain; Region: Fer4; cl02805 546271004384 TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This subfamily also includes proteins characterized as...; Region: TPP_PFOR_PNO; cd03377 546271004385 TPP-binding site [chemical binding]; other site 546271004386 dimer interface [polypeptide binding]; other site 546271004387 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 546271004388 active site 546271004389 oxyanion hole [active] 546271004390 catalytic triad [active] 546271004391 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 546271004392 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 546271004393 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 546271004394 subunit; Region: OAD_beta; cl00816 546271004395 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and...; Region: Chelatase_Class_II; cl02784 546271004396 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 546271004397 active site 546271004398 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and...; Region: Chelatase_Class_II; cl02784 546271004399 active site 546271004400 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 546271004401 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of UDP-N-...; Region: GlmM; cd05802 546271004402 active site 546271004403 substrate binding site [chemical binding]; other site 546271004404 metal binding site [ion binding]; metal-binding site 546271004405 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 546271004406 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 546271004407 YbbR-like protein; Region: YbbR; pfam07949 546271004408 YbbR-like protein; Region: YbbR; pfam07949 546271004409 TIGR00159 family protein; Region: TIGR00159 546271004410 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 546271004411 putative carbohydrate kinase; Provisional; Region: PRK10565 546271004412 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 546271004413 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 546271004414 putative substrate binding site [chemical binding]; other site 546271004415 putative ATP binding site [chemical binding]; other site 546271004416 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 546271004417 flagellar motor protein MotB; Reviewed; Region: motB; PRK07734 546271004418 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 546271004419 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 546271004420 ligand binding site [chemical binding]; other site 546271004421 flagellar motor protein MotA; Validated; Region: PRK08124 546271004422 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 546271004423 Transcriptional regulator [Transcription]; Region: LysR; COG0583 546271004424 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 546271004425 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 546271004426 dimerization interface [polypeptide binding]; other site 546271004427 aspartate aminotransferase; Provisional; Region: PRK07681 546271004428 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 546271004429 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546271004430 homodimer interface [polypeptide binding]; other site 546271004431 catalytic residue [active] 546271004432 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 546271004433 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...; Region: AAA; cd00009 546271004434 Walker A motif; other site 546271004435 ATP binding site [chemical binding]; other site 546271004436 Walker B motif; other site 546271004437 S-adenosylmethionine synthetase; Validated; Region: PRK05250 546271004438 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 546271004439 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 546271004440 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 546271004441 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 546271004442 Flavoprotein; Region: Flavoprotein; cl08021 546271004443 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 546271004444 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 546271004445 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and...; Region: GMPK; cd00071 546271004446 catalytic site [active] 546271004447 G-X2-G-X-G-K; other site 546271004448 Domain of unknown function (DUF370); Region: DUF370; cl00898 546271004449 hypothetical protein; Provisional; Region: PRK11820 546271004450 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 546271004451 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 546271004452 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 546271004453 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 546271004454 G1 box; other site 546271004455 putative GEF interaction site [polypeptide binding]; other site 546271004456 GTP/Mg2+ binding site [chemical binding]; other site 546271004457 Switch I region; other site 546271004458 G2 box; other site 546271004459 G3 box; other site 546271004460 Switch II region; other site 546271004461 G4 box; other site 546271004462 G5 box; other site 546271004463 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 546271004464 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 546271004465 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 546271004466 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 546271004467 domain; Region: Succ_DH_flav_C; pfam02910 546271004468 Succinate:quinone oxidoreductase (SQR) Type B subfamily 1, transmembrane subunit; composed of proteins similar to Bacillus subtilis SQR. SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Bacillus...; Region: SQR_TypeB_1_TM; cd03497 546271004469 putative Iron-sulfur protein interface [polypeptide binding]; other site 546271004470 proximal heme binding site [chemical binding]; other site 546271004471 distal heme binding site [chemical binding]; other site 546271004472 putative dimer interface [polypeptide binding]; other site 546271004473 Fumarase C-terminus; Region: Fumerase_C; cl00795 546271004474 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 546271004475 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 546271004476 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 546271004477 active site 546271004478 metal binding site [ion binding]; metal-binding site 546271004479 homotetramer interface [polypeptide binding]; other site 546271004480 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 Ham1-...; Region: HAM1; cd00515 546271004481 active site 546271004482 dimerization interface [polypeptide binding]; other site 546271004483 ribonuclease PH; Reviewed; Region: rph; PRK00173 546271004484 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 546271004485 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 546271004486 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 546271004487 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...; Region: 4HBT; cd00586 546271004488 active site 546271004489 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 546271004490 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 546271004491 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 546271004492 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 546271004493 Substrate binding site [chemical binding]; other site 546271004494 Mg++ binding site [ion binding]; other site 546271004495 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 546271004496 active site 546271004497 substrate binding site [chemical binding]; other site 546271004498 CoA binding site [chemical binding]; other site 546271004499 Transcriptional regulators [Transcription]; Region: GntR; COG1802 546271004500 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 546271004501 DNA-binding site [nucleotide binding]; DNA binding site 546271004502 FCD domain; Region: FCD; cl11656 546271004503 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 546271004504 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 546271004505 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 546271004506 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 546271004507 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 546271004508 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 546271004509 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 546271004510 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 546271004511 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271004512 Walker A/P-loop; other site 546271004513 ATP binding site [chemical binding]; other site 546271004514 Q-loop/lid; other site 546271004515 ABC transporter signature motif; other site 546271004516 Walker B; other site 546271004517 D-loop; other site 546271004518 H-loop/switch region; other site 546271004519 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 546271004520 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271004521 Walker A/P-loop; other site 546271004522 ATP binding site [chemical binding]; other site 546271004523 Q-loop/lid; other site 546271004524 ABC transporter signature motif; other site 546271004525 Walker B; other site 546271004526 D-loop; other site 546271004527 H-loop/switch region; other site 546271004528 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 546271004529 S-layer homology domain; Region: SLH; pfam00395 546271004530 YdjC-like protein; Region: YdjC; cl01344 546271004531 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 546271004532 nucleoside/Zn binding site; other site 546271004533 dimer interface [polypeptide binding]; other site 546271004534 catalytic motif [active] 546271004535 Nuclease-related domain; Region: NERD; pfam08378 546271004536 Telomeric repeat-binding factor 2; Region: TRF2; pfam11611 546271004537 malate dehydrogenase; Reviewed; Region: PRK06223 546271004538 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 546271004539 dimer interface [polypeptide binding]; other site 546271004540 NAD(P) binding site [chemical binding]; other site 546271004541 tetramer (dimer of dimers) interface [polypeptide binding]; other site 546271004542 substrate binding site [chemical binding]; other site 546271004543 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...; Region: rubredoxin; cd00730 546271004544 Rubredoxin; Region: Rubredoxin; pfam00301 546271004545 iron binding site [ion binding]; other site 546271004546 Heme NO binding; Region: HNOB; pfam07700 546271004547 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 546271004548 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 546271004549 GtrA-like protein; Region: GtrA; cl00971 546271004550 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 546271004551 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546271004552 SigmaW regulon antibacterial; Region: YdfA_immunity; cl12057 546271004553 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 546271004554 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 546271004555 Sodium:solute symporter family; Region: SSF; cl00456 546271004556 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 546271004557 active site 546271004558 metal binding site [ion binding]; metal-binding site 546271004559 PilZ domain; Region: PilZ; cl01260 546271004560 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 546271004561 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 546271004562 active site 546271004563 metal binding site [ion binding]; metal-binding site 546271004564 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 546271004565 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and...; Region: Chelatase_Class_II; cl02784 546271004566 active site 546271004567 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 546271004568 active site 546271004569 N-terminal domain interface [polypeptide binding]; other site 546271004570 Protein of unknown function (DUF342); Region: DUF342; pfam03961 546271004571 RNA polymerase sigma factor WhiG; Reviewed; Region: PRK06288 546271004572 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 546271004573 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 546271004574 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...; Region: Sigma70_r4; cd06171 546271004575 DNA binding residues [nucleotide binding] 546271004576 putative metal dependent hydrolase; Provisional; Region: PRK11598 546271004577 CheD chemotactic sensory transduction; Region: CheD; cl00810 546271004578 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 546271004579 CheC-like family; Region: CheC; pfam04509 546271004580 CheC-like family; Region: CheC; pfam04509 546271004581 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 546271004582 putative CheA interaction surface; other site 546271004583 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 546271004584 putative binding surface; other site 546271004585 active site 546271004586 P2 response regulator binding domain; Region: P2; pfam07194 546271004587 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 546271004588 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 546271004589 ATP binding site [chemical binding]; other site 546271004590 Mg2+ binding site [ion binding]; other site 546271004591 G-X-G motif; other site 546271004592 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 546271004593 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 546271004594 Flagellar protein YcgR; Region: YcgR_2; pfam12945 546271004595 PilZ domain; Region: PilZ; cl01260 546271004596 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 546271004597 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 546271004598 P-loop; other site 546271004599 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 546271004600 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 546271004601 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271004602 SRP54-type protein, GTPase domain; Region: SRP54; pfam00448 546271004603 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 546271004604 Walker A/P-loop; other site 546271004605 ATP binding site [chemical binding]; other site 546271004606 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 546271004607 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 546271004608 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 546271004609 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 546271004610 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 546271004611 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 546271004612 FliP family; Region: FliP; cl00593 546271004613 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 546271004614 Response regulator receiver domain; Region: Response_reg; pfam00072 546271004615 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 546271004616 active site 546271004617 phosphorylation site [posttranslational modification] 546271004618 intermolecular recognition site; other site 546271004619 dimerization interface [polypeptide binding]; other site 546271004620 flagellar motor switch protein; Validated; Region: PRK08119 546271004621 CheC-like family; Region: CheC; pfam04509 546271004622 CheC-like family; Region: CheC; pfam04509 546271004623 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 546271004624 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 546271004625 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 546271004626 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 546271004627 Flagellar protein (FlbD); Region: FlbD; cl00683 546271004628 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 546271004629 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 546271004630 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 546271004631 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 546271004632 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 546271004633 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 546271004634 Flagellar hook capping protein; Region: FlgD; cl04347 546271004635 Flagellar hook-length control protein FliK; Region: Flg_hook; cl14669 546271004636 MgtE intracellular N domain; Region: MgtE_N; cl15244 546271004637 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 catalyze...; Region: LT_GEWL; cd00254 546271004638 N-acetyl-D-glucosamine binding site [chemical binding]; other site 546271004639 catalytic residue [active] 546271004640 Flagellar FliJ protein; Region: FliJ; cl09161 546271004641 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 546271004642 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 546271004643 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 546271004644 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 546271004645 Walker A motif/ATP binding site; other site 546271004646 Walker B motif; other site 546271004647 type III secretion apparatus protein, HrpE/YscL family; Region: HrpE_YscL_not; TIGR02499 546271004648 Flagellar assembly protein FliH; Region: FliH; pfam02108 546271004649 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 546271004650 FliG C-terminal domain; Region: FliG_C; pfam01706 546271004651 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 546271004652 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 546271004653 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 546271004654 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 546271004655 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 546271004656 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 546271004657 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 546271004658 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 546271004659 transcriptional repressor CodY; Validated; Region: PRK04158 546271004660 CodY GAF-like domain; Region: CodY; pfam06018 546271004661 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 546271004662 NAD-dependent deacetylase; Provisional; Region: PRK14138 546271004663 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+...; Region: SIR2; cl00195 546271004664 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 546271004665 binding surface 546271004666 TPR motif; other site 546271004667 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 546271004668 Localisation of periplasmic protein complexes; Region: AMIN; pfam11741 546271004669 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 546271004670 active site 546271004671 metal binding site [ion binding]; metal-binding site 546271004672 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 546271004673 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 546271004674 Walker A/P-loop; other site 546271004675 ATP binding site [chemical binding]; other site 546271004676 Q-loop/lid; other site 546271004677 ABC transporter signature motif; other site 546271004678 Walker B; other site 546271004679 D-loop; other site 546271004680 H-loop/switch region; other site 546271004681 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 546271004682 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...; Region: TM_PBP2; cd06261 546271004683 dimer interface [polypeptide binding]; other site 546271004684 conserved gate region; other site 546271004685 putative PBP binding loops; other site 546271004686 ABC-ATPase subunit interface; other site 546271004687 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 546271004688 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 546271004689 coproporphyrinogen III oxidase; Provisional; Region: PRK09058 546271004690 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; cl14056 546271004691 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 546271004692 Gram-negative bacterial tonB protein; Region: TonB; cl10048 546271004693 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 546271004694 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 546271004695 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 546271004696 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 546271004697 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 546271004698 N-terminal plug; other site 546271004699 ligand-binding site [chemical binding]; other site 546271004700 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...; Region: OM_channels; cl00284 546271004701 ribonuclease III; Reviewed; Region: rnc; PRK00102 546271004702 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 post-...; Region: RIBOc; cd00593 546271004703 dimerization interface [polypeptide binding]; other site 546271004704 active site 546271004705 metal binding site [ion binding]; metal-binding site 546271004706 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...; Region: DSRM; cd00048 546271004707 dsRNA binding site [nucleotide binding]; other site 546271004708 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 546271004709 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 546271004710 dimer interface [polypeptide binding]; other site 546271004711 active site 546271004712 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 546271004713 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin...; Region: NPD_like; cd04730 546271004714 FMN binding site [chemical binding]; other site 546271004715 substrate binding site [chemical binding]; other site 546271004716 putative catalytic residue [active] 546271004717 Phosphopantetheine attachment site; Region: PP-binding; cl09936 546271004718 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 546271004719 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 546271004720 NAD(P) binding site [chemical binding]; other site 546271004721 homotetramer interface [polypeptide binding]; other site 546271004722 homodimer interface [polypeptide binding]; other site 546271004723 active site 546271004724 Acyl transferase domain; Region: Acyl_transf_1; cl08282 546271004725 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 546271004726 putative enoyl-(acyl-carrier-protein) reductase II; Region: enACPred_II; TIGR03151 546271004727 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin...; Region: NPD_like; cd04730 546271004728 FMN binding site [chemical binding]; other site 546271004729 substrate binding site [chemical binding]; other site 546271004730 putative catalytic residue [active] 546271004731 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 546271004732 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 546271004733 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 546271004734 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 546271004735 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 546271004736 Zn2+ binding site [ion binding]; other site 546271004737 Mg2+ binding site [ion binding]; other site 546271004738 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 546271004739 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 546271004740 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency...; Region: ABC_subfamily_A; cd03263 546271004741 Walker A/P-loop; other site 546271004742 ATP binding site [chemical binding]; other site 546271004743 Q-loop/lid; other site 546271004744 ABC transporter signature motif; other site 546271004745 Walker B; other site 546271004746 D-loop; other site 546271004747 H-loop/switch region; other site 546271004748 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271004749 Walker A/P-loop; other site 546271004750 ATP binding site [chemical binding]; other site 546271004751 Q-loop/lid; other site 546271004752 ABC transporter signature motif; other site 546271004753 Walker B; other site 546271004754 D-loop; other site 546271004755 H-loop/switch region; other site 546271004756 ABC-2 type transporter; Region: ABC2_membrane; cl11417 546271004757 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 546271004758 ABC-2 type transporter; Region: ABC2_membrane; cl11417 546271004759 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 546271004760 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...; Region: AAA; cd00009 546271004761 Walker A motif; other site 546271004762 ATP binding site [chemical binding]; other site 546271004763 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271004764 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 546271004765 active site 546271004766 HslU subunit interaction site [polypeptide binding]; other site 546271004767 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; cl11520 546271004768 Glucose inhibited division protein A; Region: GIDA; pfam01134 546271004769 DNA topoisomerase I; Validated; Region: PRK05582 546271004770 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...; Region: TOPRIM_TopoIA_TopoI; cd03363 546271004771 active site 546271004772 interdomain interaction site; other site 546271004773 putative metal-binding site [ion binding]; other site 546271004774 nucleotide binding site [chemical binding]; other site 546271004775 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...; Region: TOP1Ac; cd00186 546271004776 domain I; other site 546271004777 DNA binding groove [nucleotide binding] 546271004778 phosphate binding site [ion binding]; other site 546271004779 domain II; other site 546271004780 domain III; other site 546271004781 nucleotide binding site [chemical binding]; other site 546271004782 catalytic site [active] 546271004783 domain IV; other site 546271004784 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 546271004785 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 546271004786 DNA topoisomerase III; Provisional; Region: PRK07726 546271004787 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 546271004788 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 546271004789 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 546271004790 active site 546271004791 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 546271004792 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 546271004793 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 546271004794 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 546271004795 glutamine binding [chemical binding]; other site 546271004796 catalytic triad [active] 546271004797 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 546271004798 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 546271004799 chorismate binding enzyme; Region: Chorismate_bind; cl10555 546271004800 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...; Region: Tryptophan_synthase_alpha; cd04724 546271004801 substrate binding site [chemical binding]; other site 546271004802 active site 546271004803 catalytic residues [active] 546271004804 heterodimer interface [polypeptide binding]; other site 546271004805 tryptophan synthase, beta chain; Region: PLN02618 546271004806 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 546271004807 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546271004808 catalytic residue [active] 546271004809 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 546271004810 active site 546271004811 ribulose/triose binding site [chemical binding]; other site 546271004812 phosphate binding site [ion binding]; other site 546271004813 substrate (anthranilate) binding pocket [chemical binding]; other site 546271004814 product (indole) binding pocket [chemical binding]; other site 546271004815 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 monomeric...; Region: PRAI; cd00405 546271004816 active site 546271004817 EamA-like transporter family; Region: EamA; cl01037 546271004818 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 546271004819 endonuclease III; Region: ENDO3c; smart00478 546271004820 minor groove reading motif; other site 546271004821 helix-hairpin-helix signature motif; other site 546271004822 substrate binding pocket [chemical binding]; other site 546271004823 active site 546271004824 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...; Region: DnaJ; cd06257 546271004825 HSP70 interaction site [polypeptide binding]; other site 546271004826 DnaJ central domain; Region: DnaJ_CXXCXGXG; cl14908 546271004827 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 546271004828 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 546271004829 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 546271004830 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 546271004831 dimer interface [polypeptide binding]; other site 546271004832 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 546271004833 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 546271004834 HrcA protein C terminal domain; Region: HrcA; pfam01628 546271004835 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 546271004836 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 546271004837 FeS/SAM binding site; other site 546271004838 HemN C-terminal region; Region: HemN_C; pfam06969 546271004839 GTP-binding protein LepA; Provisional; Region: PRK05433 546271004840 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 546271004841 G1 box; other site 546271004842 putative GEF interaction site [polypeptide binding]; other site 546271004843 GTP/Mg2+ binding site [chemical binding]; other site 546271004844 Switch I region; other site 546271004845 G2 box; other site 546271004846 G3 box; other site 546271004847 Switch II region; other site 546271004848 G4 box; other site 546271004849 G5 box; other site 546271004850 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-...; Region: lepA_II; cd03699 546271004851 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 546271004852 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 546271004853 Stress-activated map kinase interacting protein 1 (SIN1); Region: SIN1; pfam05422 546271004854 histidinol-phosphatase; Provisional; Region: PRK07328 546271004855 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 546271004856 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 546271004857 active site 546271004858 motif I; other site 546271004859 motif II; other site 546271004860 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; cl11391 546271004861 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 546271004862 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 546271004863 FeS/SAM binding site; other site 546271004864 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 546271004865 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 546271004866 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 546271004867 FeS/SAM binding site; other site 546271004868 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 546271004869 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 546271004870 Uncharacterized conserved protein [Function unknown]; Region: COG1284 546271004871 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 546271004872 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 546271004873 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 546271004874 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 546271004875 Walker A/P-loop; other site 546271004876 ATP binding site [chemical binding]; other site 546271004877 Q-loop/lid; other site 546271004878 ABC transporter signature motif; other site 546271004879 Walker B; other site 546271004880 D-loop; other site 546271004881 H-loop/switch region; other site 546271004882 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 546271004883 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...; Region: TM_ABC_iron-siderophores_like; cd06550 546271004884 ABC-ATPase subunit interface; other site 546271004885 dimer interface [polypeptide binding]; other site 546271004886 putative PBP binding regions; other site 546271004887 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 546271004888 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...; Region: TroA-like; cl00262 546271004889 intersubunit interface [polypeptide binding]; other site 546271004890 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271004891 Active site [active] 546271004892 threonine synthase; Validated; Region: PRK06450 546271004893 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD)...; Region: Trp-synth-beta_II; cl00342 546271004894 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 546271004895 catalytic residue [active] 546271004896 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 546271004897 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 546271004898 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 546271004899 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 546271004900 RelB antitoxin; Region: RelB; cl01171 546271004901 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 546271004902 EamA-like transporter family; Region: EamA; cl01037 546271004903 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 546271004904 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 546271004905 UV radiation resistance protein and autophagy-related subunit 14; Region: Atg14; pfam10186 546271004906 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 546271004907 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...; Region: HNHc; cl00083 546271004908 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 546271004909 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271004910 Walker A/P-loop; other site 546271004911 ATP binding site [chemical binding]; other site 546271004912 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271004913 Walker B; other site 546271004914 D-loop; other site 546271004915 H-loop/switch region; other site 546271004916 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 546271004917 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 546271004918 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 546271004919 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 546271004920 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 546271004921 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 546271004922 Predicted methyltransferases [General function prediction only]; Region: COG0313 546271004923 PSP1 C-terminal conserved region; Region: PSP1; cl00770 546271004924 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 546271004925 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271004926 Protein of unknown function (DUF327); Region: DUF327; cl00753 546271004927 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 546271004928 putative acyl-acceptor binding pocket; other site 546271004929 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 546271004930 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 546271004931 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2,3-...; Region: LbH_LpxD; cd03352 546271004932 trimer interface [polypeptide binding]; other site 546271004933 active site 546271004934 UDP-GlcNAc binding site [chemical binding]; other site 546271004935 lipid binding site [chemical binding]; lipid-binding site 546271004936 Outer membrane protein (OmpH-like); Region: OmpH; cl08146 546271004937 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 546271004938 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 546271004939 Surface antigen; Region: Bac_surface_Ag; cl03097 546271004940 DNA-directed RNA polymerase specialized sigma subunit [Transcription]; Region: FliA; COG1191 546271004941 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 546271004942 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...; Region: Sigma70_r4; cl01055 546271004943 Family of unknown function (DUF490); Region: DUF490; pfam04357 546271004944 Family of unknown function (DUF490); Region: DUF490; pfam04357 546271004945 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 546271004946 Outer membrane efflux protein; Region: OEP; pfam02321 546271004947 Outer membrane efflux protein; Region: OEP; pfam02321 546271004948 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 546271004949 mce related protein; Region: MCE; cl03606 546271004950 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 546271004951 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 546271004952 Walker A/P-loop; other site 546271004953 ATP binding site [chemical binding]; other site 546271004954 Q-loop/lid; other site 546271004955 ABC transporter signature motif; other site 546271004956 Walker B; other site 546271004957 D-loop; other site 546271004958 H-loop/switch region; other site 546271004959 Domain of unknown function DUF140; Region: DUF140; cl00510 546271004960 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 546271004961 Localisation of periplasmic protein complexes; Region: AMIN; pfam11741 546271004962 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: EpsL; COG4632 546271004963 Predicted periplasmic protein (DUF2233); Region: DUF2233; cl10481 546271004964 cell division protein FtsZ; Validated; Region: PRK09330 546271004965 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...; Region: FtsZ_type1; cd02201 546271004966 nucleotide binding site [chemical binding]; other site 546271004967 SulA interaction site; other site 546271004968 Protein of unknown function (DUF1290); Region: DUF1290; cl01587 546271004969 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 546271004970 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 546271004971 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 546271004972 Cell division protein FtsQ; Region: FtsQ; pfam03799 546271004973 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 546271004974 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 546271004975 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 546271004976 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 546271004977 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 546271004978 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 546271004979 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 546271004980 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 546271004981 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...; Region: GT1_MurG; cd03785 546271004982 active site 546271004983 homodimer interface [polypeptide binding]; other site 546271004984 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 546271004985 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546271004986 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 546271004987 phospho-N-acetylmuramoyl-pentapeptide-transferase; Region: mraY; TIGR00445 546271004988 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 undecaprenyl-pyrophosphoryl-N-...; Region: GT_MraY; cd06852 546271004989 Mg++ binding site [ion binding]; other site 546271004990 putative catalytic motif [active] 546271004991 putative substrate binding site [chemical binding]; other site 546271004992 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 546271004993 putative bifunctional UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase/UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase; Provisional; Region: PRK11929 546271004994 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 546271004995 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 546271004996 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 546271004997 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 546271004998 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 546271004999 Septum formation initiator; Region: DivIC; cl11433 546271005000 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 546271005001 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; cl12011 546271005002 cell division protein MraZ; Reviewed; Region: PRK00326 546271005003 MraZ protein; Region: MraZ; pfam02381 546271005004 MraZ protein; Region: MraZ; pfam02381 546271005005 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 546271005006 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 546271005007 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins...; Region: Band_7_flotillin; cd03399 546271005008 Chromate transporter; Region: Chromate_transp; pfam02417 546271005009 Chromate transporter; Region: Chromate_transp; pfam02417 546271005010 Autotransporter beta-domain; Region: Autotransporter; cl02365 546271005011 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 546271005012 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 546271005013 N-terminal plug; other site 546271005014 ligand-binding site [chemical binding]; other site 546271005015 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 546271005016 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 D-arabino-6-...; Region: AP2Ec; cl12060 546271005017 Metal-binding active site; metal-binding site 546271005018 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 546271005019 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 546271005020 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; cl11391 546271005021 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 546271005022 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 546271005023 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 546271005024 ATP synthase CF1 epsilon subunit; Region: atpE; CHL00063 546271005025 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 546271005026 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 546271005027 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 546271005028 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 546271005029 alpha subunit interaction interface [polypeptide binding]; other site 546271005030 Walker A motif; other site 546271005031 ATP binding site [chemical binding]; other site 546271005032 Walker B motif; other site 546271005033 inhibitor binding site; inhibition site 546271005034 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 546271005035 ATP synthase; Region: ATP-synt; cl00365 546271005036 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 546271005037 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 546271005038 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 546271005039 beta subunit interaction interface [polypeptide binding]; other site 546271005040 Walker A motif; other site 546271005041 ATP binding site [chemical binding]; other site 546271005042 Walker B motif; other site 546271005043 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 546271005044 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 546271005045 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 546271005046 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 546271005047 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 546271005048 ATP synthase subunit C; Region: ATP-synt_C; cl00466 546271005049 ATP synthase A chain; Region: ATP-synt_A; cl00413 546271005050 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 546271005051 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 546271005052 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues...; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 546271005053 active site 546271005054 homodimer interface [polypeptide binding]; other site 546271005055 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 546271005056 Mg++ binding site [ion binding]; other site 546271005057 putative catalytic motif [active] 546271005058 substrate binding site [chemical binding]; other site 546271005059 Transposase IS200 like; Region: Y1_Tnp; cl00848 546271005060 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 A site...; Region: RaiA; cd00552 546271005061 30S subunit binding site; other site 546271005062 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 546271005063 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 546271005064 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 546271005065 DNA-binding site [nucleotide binding]; DNA binding site 546271005066 RNA-binding motif; other site 546271005067 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 546271005068 active site 546271005069 dimer interface [polypeptide binding]; other site 546271005070 metal binding site [ion binding]; metal-binding site 546271005071 shikimate kinase; Reviewed; Region: aroK; PRK00131 546271005072 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...; Region: SK; cd00464 546271005073 ADP binding site [chemical binding]; other site 546271005074 magnesium binding site [ion binding]; other site 546271005075 putative shikimate binding site; other site 546271005076 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 546271005077 Tetramer interface [polypeptide binding]; other site 546271005078 Active site [active] 546271005079 FMN-binding site [chemical binding]; other site 546271005080 Pilus assembly protein, PilO; Region: PilO; cl01234 546271005081 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 546271005082 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 546271005083 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 546271005084 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 546271005085 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 546271005086 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 546271005087 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 546271005088 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 546271005089 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 546271005090 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271005091 Walker A motif; other site 546271005092 ATP binding site [chemical binding]; other site 546271005093 Walker B motif; other site 546271005094 Type II/IV secretion system protein; Region: GSPII_E; pfam00437 546271005095 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 546271005096 Walker A motif; other site 546271005097 ATP binding site [chemical binding]; other site 546271005098 Walker B motif; other site 546271005099 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 546271005100 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 546271005101 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 546271005102 shikimate binding site; other site 546271005103 NAD(P) binding site [chemical binding]; other site 546271005104 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 546271005105 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 546271005106 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 546271005107 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 546271005108 Domain of unknown function (DUF477); Region: DUF477; cl01535 546271005109 LemA family; Region: LemA; cl00742 546271005110 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 546271005111 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-...; Region: GH31; cl11402 546271005112 Transcriptional regulators [Transcription]; Region: PurR; COG1609 546271005113 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 546271005114 DNA binding site [nucleotide binding] 546271005115 domain linker motif; other site 546271005116 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 546271005117 ligand binding site [chemical binding]; other site 546271005118 dimerization interface [polypeptide binding]; other site 546271005119 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 546271005120 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the...; Region: HIT_like; cl00228 546271005121 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the...; Region: HIT_like; cl00228 546271005122 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 546271005123 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 546271005124 NAD binding site [chemical binding]; other site 546271005125 homodimer interface [polypeptide binding]; other site 546271005126 active site 546271005127 substrate binding site [chemical binding]; other site 546271005128 galactokinase; Provisional; Region: PRK05322 546271005129 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 546271005130 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 546271005131 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 546271005132 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 546271005133 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 546271005134 domain; Region: Glyco_hydro_2; pfam00703 546271005135 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl14895 546271005136 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 546271005137 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 546271005138 putative transporter; Provisional; Region: PRK11462 546271005139 cytidylate kinase; Provisional; Region: PRK04182 546271005140 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 546271005141 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose...; Region: SIS_RpiR; cd05013 546271005142 putative active site [active] 546271005143 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 546271005144 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 546271005145 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIB_glc; cd00212 546271005146 active site turn [active] 546271005147 phosphorylation site [posttranslational modification] 546271005148 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_glc; cl00162 546271005149 HPr interaction site; other site 546271005150 glycerol kinase (GK) interaction site [polypeptide binding]; other site 546271005151 active site 546271005152 phosphorylation site [posttranslational modification] 546271005153 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 546271005154 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 546271005155 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 546271005156 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 546271005157 active site 546271005158 motif I; other site 546271005159 motif II; other site 546271005160 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; cl11391 546271005161 hexokinase; Provisional; Region: PTZ00107 546271005162 Hexokinase; Region: Hexokinase_1; pfam00349 546271005163 Hexokinase; Region: Hexokinase_2; pfam03727 546271005164 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 546271005165 Uncharacterised protein family (UPF0081); Region: UPF0081; cl00525 546271005166 Protein of unknown function (DUF3084); Region: DUF3084; pfam11283 546271005167 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 546271005168 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 546271005169 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 546271005170 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 546271005171 Walker A/P-loop; other site 546271005172 ATP binding site [chemical binding]; other site 546271005173 Q-loop/lid; other site 546271005174 ABC transporter signature motif; other site 546271005175 Walker B; other site 546271005176 D-loop; other site 546271005177 H-loop/switch region; other site 546271005178 OstA-like protein; Region: OstA; cl00844 546271005179 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 546271005180 putative acyl-acceptor binding pocket; other site 546271005181 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; cl11391 546271005182 NeuB family; Region: NeuB; cl00496 546271005183 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 546271005184 Ligand binding site [chemical binding]; other site 546271005185 oligomer interface [polypeptide binding]; other site 546271005186 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 546271005187 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 546271005188 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 546271005189 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 546271005190 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 546271005191 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 546271005192 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 546271005193 Walker A/P-loop; other site 546271005194 ATP binding site [chemical binding]; other site 546271005195 Q-loop/lid; other site 546271005196 ABC transporter signature motif; other site 546271005197 Walker B; other site 546271005198 D-loop; other site 546271005199 H-loop/switch region; other site 546271005200 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 546271005201 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 546271005202 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 546271005203 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 546271005204 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A...; Region: LbH_UDP-GlcNAc_AT; cd03351 546271005205 active site 546271005206 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 546271005207 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 546271005208 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 546271005209 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 546271005210 catalytic motif [active] 546271005211 Zn binding site [ion binding]; other site 546271005212 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 546271005213 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 546271005214 Ligand Binding Site [chemical binding]; other site 546271005215 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 546271005216 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 546271005217 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 546271005218 active site 546271005219 metal binding site [ion binding]; metal-binding site 546271005220 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 546271005221 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 546271005222 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 546271005223 A subunit; Region: glycerol3P_GlpA; TIGR03377 546271005224 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 546271005225 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 546271005226 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl10040 546271005227 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 546271005228 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 546271005229 Cysteine-rich domain; Region: CCG; pfam02754 546271005230 glycerol kinase; Provisional; Region: glpK; PRK00047 546271005231 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 546271005232 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 546271005233 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-...; Region: MIP; cl00200 546271005234 amphipathic channel; other site 546271005235 Asn-Pro-Ala signature motifs; other site 546271005236 glycerol kinase; Provisional; Region: glpK; PRK00047 546271005237 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 546271005238 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 546271005239 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...; Region: OM_channels; cl00284 546271005240 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 546271005241 ligand-binding site [chemical binding]; other site 546271005242 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 546271005243 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 546271005244 transmembrane helices; other site 546271005245 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 546271005246 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 546271005247 catalytic residue [active] 546271005248 L-lactate permease; Region: Lactate_perm; cl00701 546271005249 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 546271005250 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 546271005251 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 546271005252 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 alpha-; Region: HCP_like; cl14655 546271005253 Cysteine-rich domain; Region: CCG; pfam02754 546271005254 Cysteine-rich domain; Region: CCG; pfam02754 546271005255 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 546271005256 FAD binding domain; Region: FAD_binding_4; pfam01565 546271005257 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 546271005258 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 546271005259 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 546271005260 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 546271005261 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 546271005262 Ligand binding site [chemical binding]; other site 546271005263 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 546271005264 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 546271005265 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 546271005266 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; cl09155 546271005267 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 546271005268 dimerization domain swap beta strand [polypeptide binding]; other site 546271005269 regulatory protein interface [polypeptide binding]; other site 546271005270 active site 546271005271 regulatory phosphorylation site [posttranslational modification]; other site 546271005272 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 546271005273 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 546271005274 Predicted permease; Region: DUF318; cl00487 546271005275 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 546271005276 dimerization interface [polypeptide binding]; other site 546271005277 putative DNA binding site [nucleotide binding]; other site 546271005278 putative Zn2+ binding site [ion binding]; other site 546271005279 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 546271005280 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 546271005281 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 546271005282 SelR domain; Region: SelR; cl00369 546271005283 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 546271005284 Cation transport protein; Region: TrkH; cl10514 546271005285 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 546271005286 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546271005287 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; cl09110 546271005288 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 546271005289 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 546271005290 trimerization site [polypeptide binding]; other site 546271005291 active site 546271005292 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 546271005293 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 546271005294 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 546271005295 catalytic residue [active] 546271005296 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 546271005297 FeS assembly protein SufB; Region: sufB; TIGR01980 546271005298 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 546271005299 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271005300 FeS assembly ATPase SufC; Region: sufC; TIGR01978 546271005301 Walker A/P-loop; other site 546271005302 ATP binding site [chemical binding]; other site 546271005303 Q-loop/lid; other site 546271005304 ABC transporter signature motif; other site 546271005305 Walker B; other site 546271005306 D-loop; other site 546271005307 H-loop/switch region; other site 546271005308 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 546271005309 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 546271005310 active site 546271005311 phosphorylation site [posttranslational modification] 546271005312 intermolecular recognition site; other site 546271005313 dimerization interface [polypeptide binding]; other site 546271005314 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...; Region: LuxR_C_like; cd06170 546271005315 dimerization interface [polypeptide binding]; other site 546271005316 DNA binding residues [nucleotide binding] 546271005317 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 546271005318 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 546271005319 glucose-6-phosphate isomerase; Provisional; Region: PRK00973 546271005320 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 546271005321 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 546271005322 dimer interface [polypeptide binding]; other site 546271005323 active site 546271005324 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 546271005325 active site 546271005326 tetramer interface [polypeptide binding]; other site 546271005327 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 546271005328 phosphomannomutase CpsG; Provisional; Region: PRK15414 546271005329 active site 546271005330 substrate binding site [chemical binding]; other site 546271005331 metal binding site [ion binding]; metal-binding site 546271005332 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 546271005333 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 546271005334 Flagellar L-ring protein; Region: FlgH; cl00905 546271005335 SAF domain; Region: SAF; cl00555 546271005336 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 546271005337 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 546271005338 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 546271005339 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 546271005340 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 546271005341 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 546271005342 rod shape-determining protein Mbl; Provisional; Region: PRK13928 546271005343 Cell division protein FtsA; Region: FtsA; cl11496 546271005344 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 546271005345 Uncharacterized conserved protein [Function unknown]; Region: COG3875 546271005346 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 546271005347 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 546271005348 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 546271005349 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 546271005350 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 546271005351 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 546271005352 CRISPR-associated protein Cas8c/Csd1, subtype I-C/DVULG; Region: cas_Csd1; TIGR01863 546271005353 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 546271005354 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 546271005355 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 546271005356 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 546271005357 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; cl14882 546271005358 Protein of unknown function DUF45; Region: DUF45; cl00636 546271005359 DNA gyrase subunit A; Validated; Region: PRK05560 546271005360 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 in...; Region: TOP4c; cd00187 546271005361 CAP-like domain; other site 546271005362 Active site [active] 546271005363 primary dimer interface [polypeptide binding]; other site 546271005364 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 546271005365 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 546271005366 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 546271005367 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 546271005368 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 546271005369 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 546271005370 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 546271005371 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 546271005372 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 546271005373 dimerization interface [polypeptide binding]; other site 546271005374 domain crossover interface; other site 546271005375 redox-dependent activation switch; other site 546271005376 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 546271005377 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 546271005378 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 546271005379 putative substrate binding site [chemical binding]; other site 546271005380 putative ATP binding site [chemical binding]; other site 546271005381 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 546271005382 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 546271005383 active site 546271005384 phosphorylation site [posttranslational modification] 546271005385 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...; Region: PTS_IIB_fructose; cd05569 546271005386 P-loop; other site 546271005387 active site 546271005388 phosphorylation site [posttranslational modification] 546271005389 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 546271005390 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 546271005391 dimerization interface [polypeptide binding]; other site 546271005392 putative DNA binding site [nucleotide binding]; other site 546271005393 putative Zn2+ binding site [ion binding]; other site 546271005394 Asparaginase (amidohydrolase): Asparaginases are tetrameric enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases, one highly specific for asparagine and localised to the...; Region: Asparaginase; cl00216 546271005395 tetramer interface [polypeptide binding]; other site 546271005396 active site/substrate binding site [active] 546271005397 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 546271005398 GTP-binding protein YchF; Reviewed; Region: PRK09601 546271005399 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 546271005400 G1 box; other site 546271005401 GTP/Mg2+ binding site [chemical binding]; other site 546271005402 Switch I region; other site 546271005403 G2 box; other site 546271005404 Switch II region; other site 546271005405 G3 box; other site 546271005406 G4 box; other site 546271005407 G5 box; other site 546271005408 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 546271005409 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 546271005410 Major Facilitator Superfamily; Region: MFS_1; pfam07690 546271005411 putative substrate translocation pore; other site 546271005412 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 546271005413 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 546271005414 CheB methylesterase; Region: CheB_methylest; pfam01339 546271005415 Protein of unknown function (DUF421); Region: DUF421; cl00990 546271005416 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 546271005417 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...; Region: TM_ABC_iron-siderophores_like; cl00462 546271005418 ABC-ATPase subunit interface; other site 546271005419 dimer interface [polypeptide binding]; other site 546271005420 putative PBP binding regions; other site 546271005421 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 546271005422 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-...; Region: ABC_Metallic_Cations; cd03235 546271005423 ABC-2 type transporter; Region: ABC2_membrane; cl11417 546271005424 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 546271005425 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271005426 Walker A/P-loop; other site 546271005427 ATP binding site [chemical binding]; other site 546271005428 Q-loop/lid; other site 546271005429 ABC transporter signature motif; other site 546271005430 Walker B; other site 546271005431 D-loop; other site 546271005432 H-loop/switch region; other site 546271005433 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 546271005434 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 546271005435 ADP-ribose binding site [chemical binding]; other site 546271005436 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+...; Region: SIR2; cl00195 546271005437 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271005438 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 546271005439 Walker A/P-loop; other site 546271005440 ATP binding site [chemical binding]; other site 546271005441 Q-loop/lid; other site 546271005442 ABC transporter signature motif; other site 546271005443 Walker B; other site 546271005444 D-loop; other site 546271005445 H-loop/switch region; other site 546271005446 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...; Region: TM_PBP2; cd06261 546271005447 dimer interface [polypeptide binding]; other site 546271005448 conserved gate region; other site 546271005449 putative PBP binding loops; other site 546271005450 ABC-ATPase subunit interface; other site 546271005451 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 546271005452 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 546271005453 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 546271005454 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 546271005455 Transcriptional regulators [Transcription]; Region: PurR; COG1609 546271005456 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 546271005457 DNA binding site [nucleotide binding] 546271005458 domain linker motif; other site 546271005459 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 546271005460 dimerization interface [polypeptide binding]; other site 546271005461 ligand binding site [chemical binding]; other site 546271005462 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 546271005463 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 546271005464 substrate binding [chemical binding]; other site 546271005465 active site 546271005466 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_glc; cl00162 546271005467 HPr interaction site; other site 546271005468 glycerol kinase (GK) interaction site [polypeptide binding]; other site 546271005469 active site 546271005470 phosphorylation site [posttranslational modification] 546271005471 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 546271005472 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIB_glc; cd00212 546271005473 active site turn [active] 546271005474 phosphorylation site [posttranslational modification] 546271005475 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 546271005476 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 alpha-; Region: HCP_like; cl14655 546271005477 Prismane/CO dehydrogenase family; Region: Prismane; pfam03063 546271005478 ACS interaction site; other site 546271005479 CODH interaction site; other site 546271005480 metal cluster binding site [ion binding]; other site 546271005481 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 546271005482 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 546271005483 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...; Region: TM_PBP2; cl00427 546271005484 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 546271005485 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars...; Region: ABC_NrtD_SsuB_transporters; cd03293 546271005486 Walker A/P-loop; other site 546271005487 ATP binding site [chemical binding]; other site 546271005488 Q-loop/lid; other site 546271005489 ABC transporter signature motif; other site 546271005490 Walker B; other site 546271005491 D-loop; other site 546271005492 H-loop/switch region; other site 546271005493 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 546271005494 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 546271005495 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546271005496 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 546271005497 putative L-serine binding site [chemical binding]; other site 546271005498 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 546271005499 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 546271005500 catalytic residue [active] 546271005501 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 546271005502 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 546271005503 putative bifunctional 4-alpha-glucanotransferase/glycogen debranching enzyme; Provisional; Region: PRK14510 546271005504 CD and pullulan-degrading enzymes N-terminus domain. Members of this subgroup include: Cyclomaltodextrinase (CDase), maltogenic amylase, and neopullulanase all of which are capable of hydrolyzing all or two of the following three types of substrates:...; Region: CD_pullulan_degrading_enzymes_N_term; cd02857 546271005505 homodimer; other site 546271005506 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 546271005507 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 546271005508 glycogen synthase; Provisional; Region: glgA; PRK00654 546271005509 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 546271005510 ADP-binding pocket [chemical binding]; other site 546271005511 homodimer interface [polypeptide binding]; other site 546271005512 glycogen branching enzyme; Provisional; Region: PRK12313 546271005513 Glycogen branching enzyme N-terminus domain. Glycogen branching enzyme (AKA 1,4 alpha glucan branching enzyme) catalyzes the formation of alpha-1,6 branch points in either glycogen or starch by cleavage of the alpha-1,4 glucosidic linkage yielding a...; Region: Glycogen_branching_enzyme_N_term; cd02855 546271005514 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 546271005515 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 546271005516 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 546271005517 homodimer interface [polypeptide binding]; other site 546271005518 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 546271005519 active site pocket [active] 546271005520 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 546271005521 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 546271005522 ligand binding site [chemical binding]; other site 546271005523 oligomer interface [polypeptide binding]; other site 546271005524 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 rate-...; Region: LbH_G1P_AT_C; cd04651 546271005525 dimer interface [polypeptide binding]; other site 546271005526 N-terminal domain interface [polypeptide binding]; other site 546271005527 sulfate 1 binding site; other site 546271005528 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 546271005529 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 546271005530 ligand binding site [chemical binding]; other site 546271005531 oligomer interface [polypeptide binding]; other site 546271005532 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 rate-...; Region: LbH_G1P_AT_C; cd04651 546271005533 dimer interface [polypeptide binding]; other site 546271005534 N-terminal domain interface [polypeptide binding]; other site 546271005535 sulfate 1 binding site; other site 546271005536 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 546271005537 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 546271005538 amidase catalytic site [active] 546271005539 Zn binding residues [ion binding]; other site 546271005540 substrate binding site [chemical binding]; other site 546271005541 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 546271005542 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 546271005543 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 546271005544 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 546271005545 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 546271005546 active site 546271005547 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 546271005548 S-adenosylmethionine binding site [chemical binding]; other site 546271005549 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 546271005550 Amino acid permease; Region: AA_permease; pfam00324 546271005551 Uncharacterized conserved protein [Function unknown]; Region: COG1739 546271005552 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 546271005553 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 546271005554 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 546271005555 active site 546271005556 catalytic triad [active] 546271005557 oxyanion hole [active] 546271005558 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 546271005559 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 546271005560 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 546271005561 dimer interface [polypeptide binding]; other site 546271005562 active site 546271005563 metal binding site [ion binding]; metal-binding site 546271005564 glutathione binding site [chemical binding]; other site 546271005565 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 546271005566 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 546271005567 ATP binding site [chemical binding]; other site 546271005568 putative Mg++ binding site [ion binding]; other site 546271005569 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 546271005570 nucleotide binding region [chemical binding]; other site 546271005571 ATP-binding site [chemical binding]; other site 546271005572 Domain of unknown function DUF21; Region: DUF21; pfam01595 546271005573 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 546271005574 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 546271005575 Transporter associated domain; Region: CorC_HlyC; pfam03471 546271005576 DNA topoisomerase III; Provisional; Region: PRK07726 546271005577 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by:...; Region: TOPRIM_TopoIA_TopoIII; cd03362 546271005578 active site 546271005579 putative interdomain interaction site [polypeptide binding]; other site 546271005580 putative metal-binding site [ion binding]; other site 546271005581 putative nucleotide binding site [chemical binding]; other site 546271005582 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...; Region: TOP1Ac; cd00186 546271005583 domain I; other site 546271005584 DNA binding groove [nucleotide binding] 546271005585 phosphate binding site [ion binding]; other site 546271005586 domain II; other site 546271005587 domain III; other site 546271005588 nucleotide binding site [chemical binding]; other site 546271005589 catalytic site [active] 546271005590 domain IV; other site 546271005591 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 546271005592 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 546271005593 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 546271005594 active site 546271005595 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 546271005596 substrate binding site [chemical binding]; other site 546271005597 catalytic residues [active] 546271005598 dimer interface [polypeptide binding]; other site 546271005599 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 546271005600 trimer interface [polypeptide binding]; other site 546271005601 active site 546271005602 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 546271005603 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 546271005604 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 546271005605 DHH family; Region: DHH; pfam01368 546271005606 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 546271005607 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 546271005608 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 546271005609 ATP-dependent protease, Lon family; Region: spore_lon_C; TIGR02903 546271005610 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...; Region: AAA; cd00009 546271005611 Walker A motif; other site 546271005612 ATP binding site [chemical binding]; other site 546271005613 Walker B motif; other site 546271005614 arginine finger; other site 546271005615 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 546271005616 replicative DNA helicase; Region: DnaB; TIGR00665 546271005617 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 546271005618 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 546271005619 Walker A motif; other site 546271005620 ATP binding site [chemical binding]; other site 546271005621 Walker B motif; other site 546271005622 DNA binding loops [nucleotide binding] 546271005623 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 546271005624 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 546271005625 substrate binding [chemical binding]; other site 546271005626 active site 546271005627 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 546271005628 putative alkyl hydroperoxide reductase F subunit; Region: AhpF_homolog; TIGR03143 546271005629 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 546271005630 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 546271005631 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...; Region: AhpF_NTD_N; cd02974 546271005632 catalytic residue [active] 546271005633 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 546271005634 peroxiredoxin; Region: AhpC; TIGR03137 546271005635 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...; Region: PRX_Typ2cys; cd03015 546271005636 dimer interface [polypeptide binding]; other site 546271005637 decamer (pentamer of dimers) interface [polypeptide binding]; other site 546271005638 catalytic triad [active] 546271005639 peroxidatic and resolving cysteines [active] 546271005640 histidinol-phosphatase; Provisional; Region: PRK05588 546271005641 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; cl12011 546271005642 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 546271005643 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in...; Region: TOPRIM_RNase_M5_like; cd01027 546271005644 putative active site [active] 546271005645 putative metal binding site [ion binding]; other site 546271005646 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 546271005647 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271005648 Active site [active] 546271005649 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 546271005650 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 connected by an extended linker. The...; Region: HAMP; cd06225 546271005651 dimerization interface [polypeptide binding]; other site 546271005652 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 trans-...; Region: HisKA; cd00082 546271005653 dimer interface [polypeptide binding]; other site 546271005654 phosphorylation site [posttranslational modification] 546271005655 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 546271005656 ATP binding site [chemical binding]; other site 546271005657 Mg2+ binding site [ion binding]; other site 546271005658 G-X-G motif; other site 546271005659 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 546271005660 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 546271005661 active site 546271005662 phosphorylation site [posttranslational modification] 546271005663 intermolecular recognition site; other site 546271005664 dimerization interface [polypeptide binding]; other site 546271005665 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...; Region: trans_reg_C; cd00383 546271005666 DNA binding site [nucleotide binding] 546271005667 Transcriptional regulator [Transcription]; Region: LysR; COG0583 546271005668 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 546271005669 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 546271005670 dimerization interface [polypeptide binding]; other site 546271005671 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...; Region: OM_channels; cl00284 546271005672 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...; Region: OM_channels; cl00284 546271005673 Autotransporter beta-domain; Region: Autotransporter; cl02365 546271005674 polyphosphate kinase; Provisional; Region: PRK05443 546271005675 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 546271005676 putative domain interface [polypeptide binding]; other site 546271005677 putative active site [active] 546271005678 catalytic site [active] 546271005679 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 546271005680 putative domain interface [polypeptide binding]; other site 546271005681 putative active site [active] 546271005682 catalytic site [active] 546271005683 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 546271005684 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 546271005685 Isochorismatase family; Region: Isochorismatase; pfam00857 546271005686 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 546271005687 catalytic triad [active] 546271005688 conserved cis-peptide bond; other site 546271005689 Beta-lactamase; Region: Beta-lactamase; cl01009 546271005690 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 546271005691 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 546271005692 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 546271005693 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 546271005694 oligomeric interface; other site 546271005695 putative active site [active] 546271005696 homodimer interface [polypeptide binding]; other site 546271005697 YibE/F-like protein; Region: YibE_F; cl02259 546271005698 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 546271005699 CoenzymeA binding site [chemical binding]; other site 546271005700 subunit interaction site [polypeptide binding]; other site 546271005701 PHB binding site; other site 546271005702 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 546271005703 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...; Region: NAPRTase_A; cd01570 546271005704 active site 546271005705 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 546271005706 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; cl09110 546271005707 transmembrane helices; other site 546271005708 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 546271005709 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 546271005710 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...; Region: TM_PBP2; cd06261 546271005711 dimer interface [polypeptide binding]; other site 546271005712 conserved gate region; other site 546271005713 putative PBP binding loops; other site 546271005714 ABC-ATPase subunit interface; other site 546271005715 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 546271005716 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...; Region: TM_PBP2; cd06261 546271005717 dimer interface [polypeptide binding]; other site 546271005718 conserved gate region; other site 546271005719 putative PBP binding loops; other site 546271005720 ABC-ATPase subunit interface; other site 546271005721 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 546271005722 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 546271005723 Walker A/P-loop; other site 546271005724 ATP binding site [chemical binding]; other site 546271005725 Q-loop/lid; other site 546271005726 ABC transporter signature motif; other site 546271005727 Walker B; other site 546271005728 D-loop; other site 546271005729 H-loop/switch region; other site 546271005730 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 546271005731 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 546271005732 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 546271005733 Walker A/P-loop; other site 546271005734 ATP binding site [chemical binding]; other site 546271005735 Q-loop/lid; other site 546271005736 ABC transporter signature motif; other site 546271005737 Walker B; other site 546271005738 D-loop; other site 546271005739 H-loop/switch region; other site 546271005740 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_3; cd08490 546271005741 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 546271005742 S-layer homology domain; Region: SLH; pfam00395 546271005743 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...; Region: OM_channels; cl00284 546271005744 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5- (beta-...; Region: TMP_TenI; cd00564 546271005745 thiamine phosphate binding site [chemical binding]; other site 546271005746 active site 546271005747 pyrophosphate binding site [ion binding]; other site 546271005748 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 546271005749 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 546271005750 dimer interface [polypeptide binding]; other site 546271005751 ssDNA binding site [nucleotide binding]; other site 546271005752 tetramer (dimer of dimers) interface [polypeptide binding]; other site 546271005753 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 546271005754 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 546271005755 Sulfatase; Region: Sulfatase; cl10460 546271005756 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 546271005757 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 546271005758 substrate binding site [chemical binding]; other site 546271005759 dimer interface [polypeptide binding]; other site 546271005760 catalytic triad [active] 546271005761 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 546271005762 substrate binding site [chemical binding]; other site 546271005763 hinge regions; other site 546271005764 ADP binding site [chemical binding]; other site 546271005765 catalytic site [active] 546271005766 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546271005767 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 546271005768 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 546271005769 Uncharacterized phage-associated protein [Function unknown]; Region: GepA; COG3600 546271005770 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 546271005771 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 546271005772 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 546271005773 DNA polymerase III DnaE; Validated; Region: dnaE; PRK07135 546271005774 Predicted transcriptional regulator [Transcription]; Region: COG2378 546271005775 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 546271005776 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 connected by an extended linker. The...; Region: HAMP; cd06225 546271005777 dimerization interface [polypeptide binding]; other site 546271005778 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 trans-...; Region: HisKA; cd00082 546271005779 dimer interface [polypeptide binding]; other site 546271005780 phosphorylation site [posttranslational modification] 546271005781 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 546271005782 ATP binding site [chemical binding]; other site 546271005783 Mg2+ binding site [ion binding]; other site 546271005784 G-X-G motif; other site 546271005785 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 546271005786 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 546271005787 active site 546271005788 phosphorylation site [posttranslational modification] 546271005789 intermolecular recognition site; other site 546271005790 dimerization interface [polypeptide binding]; other site 546271005791 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...; Region: trans_reg_C; cd00383 546271005792 DNA binding site [nucleotide binding] 546271005793 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 546271005794 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...; Region: TM_PBP2; cd06261 546271005795 dimer interface [polypeptide binding]; other site 546271005796 conserved gate region; other site 546271005797 ABC-ATPase subunit interface; other site 546271005798 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 546271005799 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein; Region: ABC_MetN_methionine_transporter; cd03258 546271005800 Walker A/P-loop; other site 546271005801 ATP binding site [chemical binding]; other site 546271005802 Q-loop/lid; other site 546271005803 ABC transporter signature motif; other site 546271005804 Walker B; other site 546271005805 D-loop; other site 546271005806 H-loop/switch region; other site 546271005807 NIL domain; Region: NIL; pfam09383 546271005808 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 546271005809 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-...; Region: EriC; cd01031 546271005810 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 546271005811 Cl- selectivity filter; other site 546271005812 Cl- binding residues [ion binding]; other site 546271005813 pore gating glutamate residue; other site 546271005814 dimer interface [polypeptide binding]; other site 546271005815 H+/Cl- coupling transport residue; other site 546271005816 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; cl09110 546271005817 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 546271005818 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 546271005819 active site 546271005820 catalytic residues [active] 546271005821 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 546271005822 Response regulator receiver domain; Region: Response_reg; pfam00072 546271005823 active site 546271005824 phosphorylation site [posttranslational modification] 546271005825 intermolecular recognition site; other site 546271005826 dimerization interface [polypeptide binding]; other site 546271005827 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 546271005828 metal binding site [ion binding]; metal-binding site 546271005829 active site 546271005830 I-site; other site 546271005831 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 546271005832 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 546271005833 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 546271005834 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 546271005835 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 546271005836 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 546271005837 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 546271005838 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 C-...; Region: PDZ_serine_protease; cd00987 546271005839 protein binding site [polypeptide binding]; other site 546271005840 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 546271005841 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 546271005842 Transposase IS200 like; Region: Y1_Tnp; cl00848 546271005843 Predicted transcriptional regulator [Transcription]; Region: COG2378 546271005844 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 546271005845 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs)...; Region: Era_like; cd00880 546271005846 G1 box; other site 546271005847 GTP/Mg2+ binding site [chemical binding]; other site 546271005848 Switch I region; other site 546271005849 G2 box; other site 546271005850 Switch II region; other site 546271005851 G3 box; other site 546271005852 G4 box; other site 546271005853 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 546271005854 GTP/Mg2+ binding site [chemical binding]; other site 546271005855 G5 box; other site 546271005856 G1 box; other site 546271005857 Switch I region; other site 546271005858 G2 box; other site 546271005859 G3 box; other site 546271005860 Switch II region; other site 546271005861 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 546271005862 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a...; Region: Hint; cl12032 546271005863 release factor H-coupled RctB family protein; Region: release_rtcB; TIGR03073 546271005864 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 546271005865 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 546271005866 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 546271005867 metal ion-dependent adhesion site (MIDAS); other site 546271005868 Peptidase family M48; Region: Peptidase_M48; cl12018 546271005869 Carbon starvation protein CstA; Region: CstA; cl00856 546271005870 Carbon starvation protein CstA; Region: CstA; cl00856 546271005871 Nitrous oxide-stimulated promoter; Region: YgbA_NO; cl08119 546271005872 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 546271005873 metal ion-dependent adhesion site (MIDAS); other site 546271005874 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 546271005875 substrate binding site [chemical binding]; other site 546271005876 activation loop (A-loop); other site 546271005877 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 546271005878 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 546271005879 FeS/SAM binding site; other site 546271005880 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 546271005881 ATP cone domain; Region: ATP-cone; pfam03477 546271005882 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 546271005883 Class III ribonucleotide reductase; Region: RNR_III; cd01675 546271005884 effector binding site; other site 546271005885 active site 546271005886 Zn binding site [ion binding]; other site 546271005887 glycine loop; other site 546271005888 Mechanosensitive ion channel; Region: MS_channel; pfam00924 546271005889 Uncharacterized family 3; belongs to a superfamily containing the transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_3; cd10160 546271005890 putative homotetramer interface [polypeptide binding]; other site 546271005891 putative homodimer interface [polypeptide binding]; other site 546271005892 putative metal binding site [ion binding]; other site 546271005893 putative homodimer-homodimer interface [polypeptide binding]; other site 546271005894 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 546271005895 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546271005896 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 546271005897 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 546271005898 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; cl11391 546271005899 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; cl00207 546271005900 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 546271005901 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 546271005902 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 546271005903 N-terminal plug; other site 546271005904 ligand-binding site [chemical binding]; other site 546271005905 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 546271005906 Uncharacterized conserved protein [Function unknown]; Region: COG2461 546271005907 Family of unknown function (DUF438); Region: DUF438; pfam04282 546271005908 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 546271005909 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 546271005910 MgtC family; Region: MgtC; cl12207 546271005911 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 546271005912 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 546271005913 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 546271005914 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 546271005915 G1 box; other site 546271005916 GTP/Mg2+ binding site [chemical binding]; other site 546271005917 Switch I region; other site 546271005918 G2 box; other site 546271005919 G3 box; other site 546271005920 Switch II region; other site 546271005921 G4 box; other site 546271005922 G5 box; other site 546271005923 Glycosyl transferase family 11; Region: Glyco_transf_11; pfam01531 546271005924 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 546271005925 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 546271005926 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546271005927 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 546271005928 Protein of unknown function (DUF819); Region: DUF819; cl02317 546271005929 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 546271005930 putative ligand binding site [chemical binding]; other site 546271005931 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 546271005932 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 546271005933 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 546271005934 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 546271005935 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 546271005936 TM1410 hypothetical-related protein; Region: DUF297; cl00997 546271005937 Predicted membrane protein [Function unknown]; Region: COG4267 546271005938 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule...; Region: GT1_like_3; cd03813 546271005939 Uncharacterized protein conserved in bacteria (DUF2194); Region: DUF2194; pfam09960 546271005940 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4878 546271005941 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 546271005942 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546271005943 active site 546271005944 GAF domain; Region: GAF; cl00853 546271005945 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 546271005946 NlpC/P60 family; Region: NLPC_P60; cl11438 546271005947 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 546271005948 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 546271005949 active site pocket [active] 546271005950 putative dimer interface [polypeptide binding]; other site 546271005951 putative cataytic base [active] 546271005952 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cl11435 546271005953 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 546271005954 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 546271005955 Uncharacterised protein family (UPF0081); Region: UPF0081; cl00525 546271005956 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...; Region: S1_Tex; cd05685 546271005957 RNA binding site [nucleotide binding]; other site 546271005958 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 546271005959 putative methanogenesis marker 16 metalloprotein; Region: methan_mark_16; TIGR03287 546271005960 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 546271005961 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 alpha-; Region: HCP_like; cl14655 546271005962 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 546271005963 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 546271005964 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 546271005965 putative active site [active] 546271005966 Uncharacterized conserved protein [Function unknown]; Region: COG4715 546271005967 SWIM zinc finger; Region: SWIM; cl11618 546271005968 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 546271005969 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 546271005970 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 546271005971 ATP binding site [chemical binding]; other site 546271005972 putative Mg++ binding site [ion binding]; other site 546271005973 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 546271005974 nucleotide binding region [chemical binding]; other site 546271005975 ATP-binding site [chemical binding]; other site 546271005976 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 546271005977 active site 546271005978 DNA polymerase IV; Validated; Region: PRK02406 546271005979 DNA binding site [nucleotide binding] 546271005980 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 546271005981 aconitate hydratase; Validated; Region: PRK07229 546271005982 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 546271005983 substrate binding site [chemical binding]; other site 546271005984 ligand binding site [chemical binding]; other site 546271005985 Bacterial Aconitase-like swivel domain. Aconitase (aconitate hydratase or citrate hydrolyase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. Cis-aconitate is formed as an intermediate product during the...; Region: AcnA_Bact_Swivel; cd01579 546271005986 substrate binding site [chemical binding]; other site 546271005987 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 546271005988 Citrate synthase; Region: Citrate_synt; pfam00285 546271005989 oxalacetate binding site [chemical binding]; other site 546271005990 citrylCoA binding site [chemical binding]; other site 546271005991 coenzyme A binding site [chemical binding]; other site 546271005992 catalytic triad [active] 546271005993 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 546271005994 isocitrate dehydrogenase; Validated; Region: PRK06451 546271005995 pyruvate kinase; Provisional; Region: PRK05826 546271005996 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; cl09155 546271005997 domain interfaces; other site 546271005998 active site 546271005999 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 546271006000 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 546271006001 peptide chain release factor 1; Validated; Region: prfA; PRK00591 546271006002 RF-1 domain; Region: RF-1; cl02875 546271006003 RF-1 domain; Region: RF-1; cl02875 546271006004 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 546271006005 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 546271006006 S-adenosylmethionine binding site [chemical binding]; other site 546271006007 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 546271006008 SUA5 domain; Region: SUA5; pfam03481 546271006009 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 546271006010 Transcriptional regulators [Transcription]; Region: MarR; COG1846 546271006011 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 546271006012 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 546271006013 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; cl11391 546271006014 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 546271006015 active site 546271006016 catalytic motif [active] 546271006017 Zn binding site [ion binding]; other site 546271006018 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 546271006019 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 546271006020 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 546271006021 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 546271006022 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 546271006023 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...; Region: TlpA_like_family; cd02966 546271006024 catalytic residues [active] 546271006025 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 546271006026 Uncharacterized conserved protein [Function unknown]; Region: COG2006 546271006027 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 546271006028 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546271006029 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; cl09110 546271006030 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 546271006031 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; cl09110 546271006032 Cation transport protein; Region: TrkH; cl10514 546271006033 aspartate aminotransferase; Provisional; Region: PRK08361 546271006034 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 546271006035 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546271006036 homodimer interface [polypeptide binding]; other site 546271006037 catalytic residue [active] 546271006038 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 546271006039 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 546271006040 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 546271006041 homodimer interface [polypeptide binding]; other site 546271006042 substrate-cofactor binding pocket; other site 546271006043 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546271006044 catalytic residue [active] 546271006045 alanine racemase; Reviewed; Region: alr; PRK00053 546271006046 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 546271006047 active site 546271006048 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 546271006049 dimer interface [polypeptide binding]; other site 546271006050 substrate binding site [chemical binding]; other site 546271006051 catalytic residues [active] 546271006052 seryl-tRNA synthetase; Provisional; Region: PRK05431 546271006053 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 546271006054 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 546271006055 dimer interface [polypeptide binding]; other site 546271006056 active site 546271006057 motif 1; other site 546271006058 motif 2; other site 546271006059 motif 3; other site 546271006060 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 546271006061 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 546271006062 active site 546271006063 phosphorylation site [posttranslational modification] 546271006064 intermolecular recognition site; other site 546271006065 dimerization interface [polypeptide binding]; other site 546271006066 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...; Region: LuxR_C_like; cd06170 546271006067 DNA binding residues [nucleotide binding] 546271006068 dimerization interface [polypeptide binding]; other site 546271006069 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 546271006070 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 546271006071 ATP binding site [chemical binding]; other site 546271006072 Mg2+ binding site [ion binding]; other site 546271006073 G-X-G motif; other site 546271006074 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 546271006075 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 546271006076 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs)...; Region: Era_like; cd00880 546271006077 G1 box; other site 546271006078 GTP/Mg2+ binding site [chemical binding]; other site 546271006079 Switch I region; other site 546271006080 G2 box; other site 546271006081 Switch II region; other site 546271006082 G3 box; other site 546271006083 G4 box; other site 546271006084 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs)...; Region: Era_like; cd00880 546271006085 G1 box; other site 546271006086 GTP/Mg2+ binding site [chemical binding]; other site 546271006087 Switch I region; other site 546271006088 G2 box; other site 546271006089 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs)...; Region: Era_like; cd00880 546271006090 Switch II region; other site 546271006091 G3 box; other site 546271006092 G4 box; other site 546271006093 G5 box; other site 546271006094 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 546271006095 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 546271006096 active site 546271006097 Uncharacterised ArCR, COG2043; Region: DUF169; cl00894 546271006098 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 546271006099 Cation transport protein; Region: TrkH; cl10514 546271006100 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 546271006101 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 546271006102 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 546271006103 FeS/SAM binding site; other site 546271006104 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 546271006105 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; cl14056 546271006106 Protein of unknown function (DUF3791); Region: DUF3791; pfam12668 546271006107 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 546271006108 active site residue [active] 546271006109 Beta-lactamase; Region: Beta-lactamase; cl01009 546271006110 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 546271006111 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 546271006112 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIB_glc; cd00212 546271006113 active site turn [active] 546271006114 phosphorylation site [posttranslational modification] 546271006115 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_glc; cl00162 546271006116 HPr interaction site; other site 546271006117 glycerol kinase (GK) interaction site [polypeptide binding]; other site 546271006118 active site 546271006119 phosphorylation site [posttranslational modification] 546271006120 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 546271006121 S-adenosylmethionine binding site [chemical binding]; other site 546271006122 Rubrerythrin [Energy production and conversion]; Region: COG1592 546271006123 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 546271006124 binuclear metal center [ion binding]; other site 546271006125 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-...; Region: rubredoxin_SM; cd00729 546271006126 iron binding site [ion binding]; other site 546271006127 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 546271006128 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 546271006129 putative dimer interface [polypeptide binding]; other site 546271006130 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 546271006131 dimer interface [polypeptide binding]; other site 546271006132 metal binding site [ion binding]; metal-binding site 546271006133 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 546271006134 Pyruvate formate lyase 1; Region: PFL1; cd01678 546271006135 coenzyme A binding site [chemical binding]; other site 546271006136 active site 546271006137 catalytic residues [active] 546271006138 glycine loop; other site 546271006139 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 546271006140 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 546271006141 FeS/SAM binding site; other site 546271006142 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 546271006143 metal ion-dependent adhesion site (MIDAS); other site 546271006144 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 546271006145 Cysteine-rich domain; Region: CCG; pfam02754 546271006146 Cysteine-rich domain; Region: CCG; pfam02754 546271006147 FAD binding domain; Region: FAD_binding_4; pfam01565 546271006148 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 546271006149 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 546271006150 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 546271006151 transmembrane helices; other site 546271006152 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 546271006153 putative active site [active] 546271006154 putative metal binding residues [ion binding]; other site 546271006155 signature motif; other site 546271006156 putative dimer interface [polypeptide binding]; other site 546271006157 putative phosphate binding site [ion binding]; other site 546271006158 adenylosuccinate lyase; Provisional; Region: PRK07380 546271006159 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 546271006160 tetramer interface [polypeptide binding]; other site 546271006161 active site 546271006162 adenylosuccinate synthetase; Provisional; Region: PRK01117 546271006163 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 r-...; Region: AdSS; cd03108 546271006164 GDP-binding site [chemical binding]; other site 546271006165 ACT binding site; other site 546271006166 IMP binding site; other site 546271006167 ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]; Region: CeuC; COG4605 546271006168 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...; Region: TM_ABC_iron-siderophores_like; cd06550 546271006169 ABC-ATPase subunit interface; other site 546271006170 dimer interface [polypeptide binding]; other site 546271006171 putative PBP binding regions; other site 546271006172 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 546271006173 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 546271006174 Walker A/P-loop; other site 546271006175 ATP binding site [chemical binding]; other site 546271006176 Q-loop/lid; other site 546271006177 ABC transporter signature motif; other site 546271006178 Walker B; other site 546271006179 D-loop; other site 546271006180 H-loop/switch region; other site 546271006181 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency...; Region: ABC_subfamily_A; cd03263 546271006182 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 546271006183 Walker A/P-loop; other site 546271006184 ATP binding site [chemical binding]; other site 546271006185 Q-loop/lid; other site 546271006186 ABC transporter signature motif; other site 546271006187 Walker B; other site 546271006188 D-loop; other site 546271006189 H-loop/switch region; other site 546271006190 ABC-2 type transporter; Region: ABC2_membrane; cl11417 546271006191 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...; Region: TroA-like; cl00262 546271006192 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 546271006193 intersubunit interface [polypeptide binding]; other site 546271006194 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 546271006195 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 546271006196 N-terminal plug; other site 546271006197 ligand-binding site [chemical binding]; other site 546271006198 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 546271006199 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 546271006200 N-terminal plug; other site 546271006201 ligand-binding site [chemical binding]; other site 546271006202 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 546271006203 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 546271006204 dimer interface [polypeptide binding]; other site 546271006205 active site 546271006206 metal binding site [ion binding]; metal-binding site 546271006207 putative transposase OrfB; Reviewed; Region: PHA02517 546271006208 Integrase core domain; Region: rve; cl01316 546271006209 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 546271006210 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...; Region: AAA; cd00009 546271006211 Walker A motif; other site 546271006212 ATP binding site [chemical binding]; other site 546271006213 Walker B motif; other site 546271006214 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 546271006215 HipA-like C-terminal domain; Region: HipA_C; pfam07804 546271006216 HipA-like C-terminal domain; Region: HipA_C; pfam07804 546271006217 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 catalyses the last step in the production of methionine by...; Region: CIMS_C_terminal_like; cd03311 546271006218 substrate binding site [chemical binding]; other site 546271006219 THF binding site; other site 546271006220 zinc-binding site [ion binding]; other site 546271006221 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 546271006222 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 546271006223 Uncharacterized conserved protein [Function unknown]; Region: COG3287 546271006224 FIST N domain; Region: FIST; pfam08495 546271006225 FIST C domain; Region: FIST_C; pfam10442 546271006226 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 546271006227 metal binding site [ion binding]; metal-binding site 546271006228 active site 546271006229 I-site; other site 546271006230 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 546271006231 metal binding site 2 [ion binding]; metal-binding site 546271006232 putative DNA binding helix; other site 546271006233 metal binding site 1 [ion binding]; metal-binding site 546271006234 dimer interface [polypeptide binding]; other site 546271006235 structural Zn2+ binding site [ion binding]; other site 546271006236 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 546271006237 PAS fold; Region: PAS_3; pfam08447 546271006238 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 546271006239 metal binding site [ion binding]; metal-binding site 546271006240 active site 546271006241 I-site; other site 546271006242 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 546271006243 Ligand Binding Site [chemical binding]; other site 546271006244 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 546271006245 Ligand Binding Site [chemical binding]; other site 546271006246 threonine dehydratase; Provisional; Region: PRK08198 546271006247 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 546271006248 tetramer interface [polypeptide binding]; other site 546271006249 pyridoxal 5'-phosphate binding site [chemical binding]; other site 546271006250 catalytic residue [active] 546271006251 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 546271006252 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 546271006253 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 546271006254 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 546271006255 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small...; Region: DSRD; cl00018 546271006256 non-heme iron binding site [ion binding]; other site 546271006257 dimer interface [polypeptide binding]; other site 546271006258 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 546271006259 non-heme iron binding site [ion binding]; other site 546271006260 Cupin domain; Region: Cupin_2; cl09118 546271006261 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 546271006262 Peptidase family M23; Region: Peptidase_M23; pfam01551 546271006263 ParB-like partition proteins; Region: parB_part; TIGR00180 546271006264 ParB-like nuclease domain; Region: ParBc; cl02129 546271006265 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 546271006266 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...; Region: ParA; cd02042 546271006267 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 546271006268 P-loop; other site 546271006269 Magnesium ion binding site [ion binding]; other site 546271006270 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 546271006271 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 546271006272 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; cl14105 546271006273 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 546271006274 Pterin binding enzyme; Region: Pterin_bind; pfam00809 546271006275 substrate binding pocket [chemical binding]; other site 546271006276 dimer interface [polypeptide binding]; other site 546271006277 inhibitor binding site; inhibition site 546271006278 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 546271006279 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 546271006280 B12 binding site [chemical binding]; other site 546271006281 cobalt ligand [ion binding]; other site 546271006282 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 546271006283 6-phosphofructokinase; Provisional; Region: PRK03202 546271006284 active site 546271006285 ADP/pyrophosphate binding site [chemical binding]; other site 546271006286 dimerization interface [polypeptide binding]; other site 546271006287 allosteric effector site; other site 546271006288 fructose-1,6-bisphosphate binding site; other site 546271006289 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 546271006290 MAEBL; Provisional; Region: PTZ00121 546271006291 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 546271006292 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; cl11520 546271006293 Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]; Region: GidA; COG0445 546271006294 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 546271006295 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 546271006296 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 546271006297 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 546271006298 G1 box; other site 546271006299 G1 box; other site 546271006300 GTP/Mg2+ binding site [chemical binding]; other site 546271006301 GTP/Mg2+ binding site [chemical binding]; other site 546271006302 Switch I region; other site 546271006303 G2 box; other site 546271006304 Switch II region; other site 546271006305 G3 box; other site 546271006306 G4 box; other site 546271006307 G5 box; other site 546271006308 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 546271006309 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 546271006310 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 546271006311 G-X-X-G motif; other site 546271006312 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 546271006313 RxxxH motif; other site 546271006314 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 546271006315 Domain of unknown function DUF37; Region: DUF37; cl00506 546271006316 Ribonuclease P; Region: Ribonuclease_P; cl00457 546271006317 Ribosomal protein L34; Region: Ribosomal_L34; cl00370