-- dump date 20120504_161552 -- class Genbank::misc_feature -- table misc_feature_note -- id note 409026000001 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 409026000002 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 409026000003 LysE type translocator; Region: LysE; cl00565 409026000004 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 409026000005 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 409026000006 Protein of unknown function (DUF1186); Region: DUF1186; pfam06685 409026000007 SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Region: SWIM_PBPRA1643; TIGR04102 409026000008 SEC-C motif; Region: SEC-C; pfam02810 409026000009 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 409026000010 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 409026000011 cofactor binding site; other site 409026000012 DNA binding site [nucleotide binding] 409026000013 substrate interaction site [chemical binding]; other site 409026000014 Eco47II restriction endonuclease; Region: RE_Eco47II; pfam09553 409026000015 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 409026000016 ATP binding site [chemical binding]; other site 409026000017 putative Mg++ binding site [ion binding]; other site 409026000018 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026000019 Helicase associated domain (HA2); Region: HA2; cl04503 409026000020 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 409026000021 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 409026000022 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 409026000023 G1 box; other site 409026000024 GTP/Mg2+ binding site [chemical binding]; other site 409026000025 Switch I region; other site 409026000026 G2 box; other site 409026000027 Switch II region; other site 409026000028 G3 box; other site 409026000029 G4 box; other site 409026000030 G5 box; other site 409026000031 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 409026000032 membrane protein insertase; Provisional; Region: PRK01318 409026000033 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 409026000034 Ribonuclease P; Region: Ribonuclease_P; cl00457 409026000035 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 409026000036 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 409026000037 hypothetical protein; Validated; Region: PRK06672 409026000038 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026000039 Walker A motif; other site 409026000040 ATP binding site [chemical binding]; other site 409026000041 Walker B motif; other site 409026000042 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026000043 arginine finger; other site 409026000044 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 409026000045 DnaA box-binding interface [nucleotide binding]; other site 409026000046 DNA polymerase III subunit beta; Validated; Region: PRK05643 409026000047 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 409026000048 putative DNA binding surface [nucleotide binding]; other site 409026000049 dimer interface [polypeptide binding]; other site 409026000050 beta-clamp/clamp loader binding surface; other site 409026000051 beta-clamp/translesion DNA polymerase binding surface; other site 409026000052 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 409026000053 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026000054 Walker A/P-loop; other site 409026000055 ATP binding site [chemical binding]; other site 409026000056 Q-loop/lid; other site 409026000057 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026000058 ABC transporter signature motif; other site 409026000059 Walker B; other site 409026000060 D-loop; other site 409026000061 H-loop/switch region; other site 409026000062 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 409026000063 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 409026000064 Mg2+ binding site [ion binding]; other site 409026000065 G-X-G motif; other site 409026000066 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 409026000067 anchoring element; other site 409026000068 dimer interface [polypeptide binding]; other site 409026000069 ATP binding site [chemical binding]; other site 409026000070 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 409026000071 active site 409026000072 putative metal-binding site [ion binding]; other site 409026000073 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 409026000074 HDOD domain; Region: HDOD; pfam08668 409026000075 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 409026000076 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 409026000077 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 409026000078 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 409026000079 dimer interface [polypeptide binding]; other site 409026000080 motif 1; other site 409026000081 active site 409026000082 motif 2; other site 409026000083 motif 3; other site 409026000084 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 409026000085 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 409026000086 translocation protein TolB; Provisional; Region: tolB; PRK02889 409026000087 translocation protein TolB; Provisional; Region: tolB; PRK04922 409026000088 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 409026000089 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 409026000090 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 409026000091 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 409026000092 active site 409026000093 MOSC domain; Region: MOSC; pfam03473 409026000094 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 409026000095 CPxP motif; other site 409026000096 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 409026000097 putative deacylase active site [active] 409026000098 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 409026000099 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 409026000100 Coenzyme A binding pocket [chemical binding]; other site 409026000101 LPP20 lipoprotein; Region: LPP20; cl15824 409026000102 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 409026000103 N-acetyl-D-glucosamine binding site [chemical binding]; other site 409026000104 catalytic residue [active] 409026000105 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 409026000106 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 409026000107 dimer interface [polypeptide binding]; other site 409026000108 active site 409026000109 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 409026000110 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 409026000111 substrate binding site [chemical binding]; other site 409026000112 oxyanion hole (OAH) forming residues; other site 409026000113 trimer interface [polypeptide binding]; other site 409026000114 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 409026000115 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 409026000116 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 409026000117 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 409026000118 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 409026000119 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 409026000120 trimerization site [polypeptide binding]; other site 409026000121 active site 409026000122 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 409026000123 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 409026000124 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 409026000125 catalytic residue [active] 409026000126 acyl-CoA synthetase; Validated; Region: PRK05850 409026000127 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 409026000128 Phosphopantetheine attachment site; Region: PP-binding; cl09936 409026000129 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 409026000130 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026000131 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 409026000132 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 409026000133 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 409026000134 proline dipeptidase; Provisional; Region: PRK13607 409026000135 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 409026000136 active site 409026000137 hypothetical protein; Provisional; Region: PRK11568 409026000138 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 409026000139 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 409026000140 Cation transport protein; Region: TrkH; cl10514 409026000141 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 409026000142 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 409026000143 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 409026000144 dimerization interface [polypeptide binding]; other site 409026000145 putative DNA binding site [nucleotide binding]; other site 409026000146 putative Zn2+ binding site [ion binding]; other site 409026000147 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 409026000148 Cation transport protein; Region: TrkH; cl10514 409026000149 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 409026000150 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 409026000151 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026000152 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; cl15357 409026000153 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026000154 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; cl15357 409026000155 16S rRNA methyltransferase B; Provisional; Region: PRK10901 409026000156 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 409026000157 putative RNA binding site [nucleotide binding]; other site 409026000158 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 409026000159 S-adenosylmethionine binding site [chemical binding]; other site 409026000160 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 409026000161 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 409026000162 putative active site [active] 409026000163 substrate binding site [chemical binding]; other site 409026000164 putative cosubstrate binding site; other site 409026000165 catalytic site [active] 409026000166 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 409026000167 substrate binding site [chemical binding]; other site 409026000168 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 409026000169 active site 409026000170 catalytic residues [active] 409026000171 metal binding site [ion binding]; metal-binding site 409026000172 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; cd00118 409026000173 putative peptidoglycan binding site; other site 409026000174 hypothetical protein; Provisional; Region: PRK10736 409026000175 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 409026000176 Protein of unknown function (DUF494); Region: DUF494; cl01103 409026000177 Collagenase; Region: Peptidase_M9; pfam01752 409026000178 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 409026000179 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 409026000180 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 409026000181 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 409026000182 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 409026000183 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 409026000184 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 409026000185 apolar tunnel; other site 409026000186 heme binding site [chemical binding]; other site 409026000187 dimerization interface [polypeptide binding]; other site 409026000188 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 409026000189 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 409026000190 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 409026000191 shikimate binding site; other site 409026000192 NAD(P) binding site [chemical binding]; other site 409026000193 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 409026000194 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 409026000195 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 409026000196 trimer interface [polypeptide binding]; other site 409026000197 putative metal binding site [ion binding]; other site 409026000198 Helix-turn-helix domains; Region: HTH; cl00088 409026000199 Rrf2 family protein; Region: rrf2_super; TIGR00738 409026000200 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 409026000201 NodB motif; other site 409026000202 putative active site [active] 409026000203 putative catalytic site [active] 409026000204 Zn binding site [ion binding]; other site 409026000205 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 409026000206 C-terminal peptidase (prc); Region: prc; TIGR00225 409026000207 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 409026000208 protein binding site [polypeptide binding]; other site 409026000209 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 409026000210 Catalytic dyad [active] 409026000211 AmiB activator; Provisional; Region: PRK11637 409026000212 Sulfatase; Region: Sulfatase; cl10460 409026000213 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 409026000214 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 409026000215 active site residue [active] 409026000216 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 409026000217 SecA binding site; other site 409026000218 Preprotein binding site; other site 409026000219 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 409026000220 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026000221 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 409026000222 Predicted flavoproteins [General function prediction only]; Region: COG2081 409026000223 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026000224 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 409026000225 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 409026000226 N-terminal plug; other site 409026000227 ligand-binding site [chemical binding]; other site 409026000228 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 409026000229 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 409026000230 argininosuccinate lyase; Provisional; Region: PRK02186 409026000231 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 409026000232 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 409026000233 IucA / IucC family; Region: IucA_IucC; pfam04183 409026000234 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 409026000235 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 409026000236 Major Facilitator Superfamily; Region: MFS_1; pfam07690 409026000237 putative substrate translocation pore; other site 409026000238 IucA / IucC family; Region: IucA_IucC; pfam04183 409026000239 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 409026000240 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 409026000241 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme PvsE; Region: PLPDE_III_PvsE_like; cd06843 409026000242 dimer interface [polypeptide binding]; other site 409026000243 active site 409026000244 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 409026000245 catalytic residues [active] 409026000246 substrate binding site [chemical binding]; other site 409026000247 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 409026000248 DNA binding residues [nucleotide binding] 409026000249 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 409026000250 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 409026000251 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 409026000252 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026000253 metal binding site [ion binding]; metal-binding site 409026000254 active site 409026000255 I-site; other site 409026000256 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 409026000257 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 409026000258 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026000259 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 409026000260 3-phytase (myo-inositol-hexaphosphate 3-phosphohydrolase) [Lipid metabolism]; Region: Phy; COG4247 409026000261 Phytase; Region: Phytase; pfam02333 409026000262 NlpC/P60 family; Region: NLPC_P60; cl11438 409026000263 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 409026000264 MPT binding site; other site 409026000265 trimer interface [polypeptide binding]; other site 409026000266 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 409026000267 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 409026000268 conserved cys residue [active] 409026000269 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 409026000270 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 409026000271 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 409026000272 ABC-2 type transporter; Region: ABC2_membrane; cl11417 409026000273 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 409026000274 NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake. NatB possess six putative membrane spanning regions at its...; Region: ABC_NatA_sodium_exporter; cd03266 409026000275 Walker A/P-loop; other site 409026000276 ATP binding site [chemical binding]; other site 409026000277 Q-loop/lid; other site 409026000278 ABC transporter signature motif; other site 409026000279 Walker B; other site 409026000280 D-loop; other site 409026000281 H-loop/switch region; other site 409026000282 proline-specific peptidases, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 409026000283 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 409026000284 Predicted transcriptional regulators [Transcription]; Region: COG1725 409026000285 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 409026000286 DNA-binding site [nucleotide binding]; DNA binding site 409026000287 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 409026000288 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 409026000289 Walker A/P-loop; other site 409026000290 ATP binding site [chemical binding]; other site 409026000291 Q-loop/lid; other site 409026000292 ABC transporter signature motif; other site 409026000293 Walker B; other site 409026000294 D-loop; other site 409026000295 H-loop/switch region; other site 409026000296 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 409026000297 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 409026000298 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 409026000299 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 409026000300 active site 409026000301 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 409026000302 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 409026000303 active site 409026000304 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 409026000305 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 409026000306 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 409026000307 2,3-diketo-5-methylthio-1-phosphopentane phosphatase; Region: enolase-ppase; TIGR01691 409026000308 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 409026000309 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 409026000310 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 409026000311 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 409026000312 Walker A/P-loop; other site 409026000313 ATP binding site [chemical binding]; other site 409026000314 Q-loop/lid; other site 409026000315 ABC transporter signature motif; other site 409026000316 Walker B; other site 409026000317 D-loop; other site 409026000318 H-loop/switch region; other site 409026000319 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 409026000320 FtsX-like permease family; Region: FtsX; pfam02687 409026000321 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 409026000322 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 409026000323 active site 409026000324 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 409026000325 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 409026000326 DNA-binding site [nucleotide binding]; DNA binding site 409026000327 UTRA domain; Region: UTRA; cl01230 409026000328 urocanate hydratase; Provisional; Region: PRK05414 409026000329 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 409026000330 active sites [active] 409026000331 tetramer interface [polypeptide binding]; other site 409026000332 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 409026000333 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 409026000334 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 409026000335 tetramer interface [polypeptide binding]; other site 409026000336 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 409026000337 CoenzymeA binding site [chemical binding]; other site 409026000338 subunit interaction site [polypeptide binding]; other site 409026000339 PHB binding site; other site 409026000340 Helix-Turn-Helix DNA binding domain of the Cfa transcription regulator; Region: HTH_Cfa; cd04789 409026000341 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 409026000342 DNA binding residues [nucleotide binding] 409026000343 putative dimer interface [polypeptide binding]; other site 409026000344 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 409026000345 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 409026000346 S-adenosylmethionine binding site [chemical binding]; other site 409026000347 Domain of unknown function (DUF4287); Region: DUF4287; pfam14117 409026000348 Protein of unknown function (DUF3157); Region: DUF3157; pfam11355 409026000349 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 409026000350 Mechanosensitive ion channel; Region: MS_channel; pfam00924 409026000351 dihydromonapterin reductase; Provisional; Region: PRK06483 409026000352 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026000353 NAD(P) binding site [chemical binding]; other site 409026000354 active site 409026000355 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 409026000356 active site 409026000357 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 409026000358 active site 409026000359 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 409026000360 Protein of unknown function (DUF692); Region: DUF692; cl01263 409026000361 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 409026000362 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 409026000363 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 409026000364 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 409026000365 DNA binding residues [nucleotide binding] 409026000366 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 409026000367 putative transposase OrfB; Reviewed; Region: PHA02517 409026000368 Integrase core domain; Region: rve; cl01316 409026000369 Helix-turn-helix domains; Region: HTH; cl00088 409026000370 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026000371 metal binding site [ion binding]; metal-binding site 409026000372 active site 409026000373 I-site; other site 409026000374 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 409026000375 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 409026000376 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 409026000377 N-terminal plug; other site 409026000378 ligand-binding site [chemical binding]; other site 409026000379 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 409026000380 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 409026000381 N-terminal plug; other site 409026000382 ligand-binding site [chemical binding]; other site 409026000383 Calx-beta domain; Region: Calx-beta; cl02522 409026000384 Calx-beta domain; Region: Calx-beta; cl02522 409026000385 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 409026000386 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 409026000387 ATP binding site [chemical binding]; other site 409026000388 substrate interface [chemical binding]; other site 409026000389 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 409026000390 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 409026000391 dimer interface [polypeptide binding]; other site 409026000392 putative functional site; other site 409026000393 putative MPT binding site; other site 409026000394 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 409026000395 Ferritin-like domain; Region: Ferritin; pfam00210 409026000396 ferroxidase diiron center [ion binding]; other site 409026000397 Nitrate and nitrite sensing; Region: NIT; pfam08376 409026000398 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 409026000399 PAS domain S-box; Region: sensory_box; TIGR00229 409026000400 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 409026000401 putative active site [active] 409026000402 heme pocket [chemical binding]; other site 409026000403 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026000404 metal binding site [ion binding]; metal-binding site 409026000405 active site 409026000406 I-site; other site 409026000407 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 409026000408 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 409026000409 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 409026000410 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 409026000411 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 409026000412 GIY-YIG motif/motif A; other site 409026000413 putative active site [active] 409026000414 putative metal binding site [ion binding]; other site 409026000415 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 409026000416 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 409026000417 methionine synthase; Provisional; Region: PRK01207 409026000418 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 409026000419 substrate binding site [chemical binding]; other site 409026000420 THF binding site; other site 409026000421 zinc-binding site [ion binding]; other site 409026000422 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 409026000423 S-adenosylmethionine binding site [chemical binding]; other site 409026000424 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_4; cd06241 409026000425 putative active site [active] 409026000426 Zn binding site [ion binding]; other site 409026000427 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 409026000428 non-specific DNA binding site [nucleotide binding]; other site 409026000429 salt bridge; other site 409026000430 sequence-specific DNA binding site [nucleotide binding]; other site 409026000431 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 409026000432 non-specific DNA binding site [nucleotide binding]; other site 409026000433 salt bridge; other site 409026000434 sequence-specific DNA binding site [nucleotide binding]; other site 409026000435 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 409026000436 active site 409026000437 substrate-binding site [chemical binding]; other site 409026000438 metal-binding site [ion binding] 409026000439 ATP binding site [chemical binding]; other site 409026000440 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 409026000441 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 409026000442 dimerization interface [polypeptide binding]; other site 409026000443 domain crossover interface; other site 409026000444 redox-dependent activation switch; other site 409026000445 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 409026000446 RNA binding surface [nucleotide binding]; other site 409026000447 Type II secretory pathway, component PulC [Intracellular trafficking and secretion]; Region: PulC; COG3031 409026000448 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 409026000449 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 409026000450 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 409026000451 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 409026000452 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 409026000453 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 409026000454 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 409026000455 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 409026000456 Walker A motif; other site 409026000457 ATP binding site [chemical binding]; other site 409026000458 Walker B motif; other site 409026000459 general secretion pathway protein F; Region: GspF; TIGR02120 409026000460 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 409026000461 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 409026000462 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 409026000463 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 409026000464 Bacterial type II secretion system protein G; Region: GSPII_G; pfam08334 409026000465 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 409026000466 general secretion pathway protein I; Region: gspI; TIGR01707 409026000467 Bacterial type II secretion system protein I/J; Region: GSPII_IJ; pfam02501 409026000468 general secretion pathway protein J; Region: gspJ; TIGR01711 409026000469 Pseudopilin GspJ; Region: GspJ; pfam11612 409026000470 General secretion pathway protein K; Region: GspK; pfam03934 409026000471 general secretion pathway protein L; Region: typeII_sec_gspL; TIGR01709 409026000472 GspL cytoplasmic actin-ATPase-like region; Region: GspL; pfam05134 409026000473 GspL periplasmic domain; Region: GspL_C; cl14909 409026000474 General secretion pathway, M protein; Region: GspM; cl01222 409026000475 Bacterial type II secretion system protein N; Region: GSPII_N; pfam01203 409026000476 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 409026000477 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 409026000478 motif II; other site 409026000479 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 409026000480 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 409026000481 dimer interface [polypeptide binding]; other site 409026000482 ADP-ribose binding site [chemical binding]; other site 409026000483 active site 409026000484 nudix motif; other site 409026000485 metal binding site [ion binding]; metal-binding site 409026000486 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 409026000487 active site 409026000488 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 409026000489 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 409026000490 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 409026000491 active site residue [active] 409026000492 selenophosphate synthetase; Provisional; Region: PRK00943 409026000493 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 409026000494 dimerization interface [polypeptide binding]; other site 409026000495 putative ATP binding site [chemical binding]; other site 409026000496 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 409026000497 Di-iron ligands [ion binding]; other site 409026000498 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 409026000499 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 409026000500 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 409026000501 Helix-turn-helix domains; Region: HTH; cl00088 409026000502 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 409026000503 tRNA (uracil-5-)-methyltransferase; Region: trmA_only; TIGR02143 409026000504 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 409026000505 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 409026000506 RNA/DNA binding site [nucleotide binding]; other site 409026000507 RRM dimerization site [polypeptide binding]; other site 409026000508 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 409026000509 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026000510 Helix-turn-helix domains; Region: HTH; cl00088 409026000511 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 409026000512 substrate binding pocket [chemical binding]; other site 409026000513 dimerization interface [polypeptide binding]; other site 409026000514 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 409026000515 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; cl15367 409026000516 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 409026000517 FeS/SAM binding site; other site 409026000518 hypothetical protein; Provisional; Region: PRK10977 409026000519 Glycine radical; Region: Gly_radical; cl12026 409026000520 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 409026000521 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 409026000522 NAD(P) binding site [chemical binding]; other site 409026000523 catalytic residues [active] 409026000524 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 409026000525 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 409026000526 NADP binding site [chemical binding]; other site 409026000527 dimer interface [polypeptide binding]; other site 409026000528 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026000529 Helix-turn-helix domains; Region: HTH; cl00088 409026000530 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 409026000531 substrate binding pocket [chemical binding]; other site 409026000532 dimerization interface [polypeptide binding]; other site 409026000533 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026000534 FAD binding domain; Region: FAD_binding_2; pfam00890 409026000535 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 409026000536 heme-binding residues [chemical binding]; other site 409026000537 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026000538 Helix-turn-helix domains; Region: HTH; cl00088 409026000539 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 409026000540 dimerization interface [polypeptide binding]; other site 409026000541 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 409026000542 Helix-turn-helix domains; Region: HTH; cl00088 409026000543 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 409026000544 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 409026000545 Phosphate transporter family; Region: PHO4; cl00396 409026000546 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 409026000547 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 409026000548 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 409026000549 putative active site [active] 409026000550 putative metal binding residues [ion binding]; other site 409026000551 signature motif; other site 409026000552 putative dimer interface [polypeptide binding]; other site 409026000553 putative phosphate binding site [ion binding]; other site 409026000554 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 409026000555 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; cl15357 409026000556 transmembrane helices; other site 409026000557 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 409026000558 Integrase core domain; Region: rve; cl01316 409026000559 two-component sensor protein; Provisional; Region: cpxA; PRK09470 409026000560 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 409026000561 dimerization interface [polypeptide binding]; other site 409026000562 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 409026000563 dimer interface [polypeptide binding]; other site 409026000564 phosphorylation site [posttranslational modification] 409026000565 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 409026000566 ATP binding site [chemical binding]; other site 409026000567 Mg2+ binding site [ion binding]; other site 409026000568 G-X-G motif; other site 409026000569 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 409026000570 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 409026000571 active site 409026000572 phosphorylation site [posttranslational modification] 409026000573 intermolecular recognition site; other site 409026000574 dimerization interface [polypeptide binding]; other site 409026000575 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 409026000576 DNA binding site [nucleotide binding] 409026000577 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 409026000578 dimer interface [polypeptide binding]; other site 409026000579 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 409026000580 Cation efflux family; Region: Cation_efflux; cl00316 409026000581 Surface antigen; Region: Surface_Ag_2; cl01155 409026000582 Surface antigen; Region: Surface_Ag_2; cl01155 409026000583 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 409026000584 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 409026000585 active site 409026000586 phosphorylation site [posttranslational modification] 409026000587 intermolecular recognition site; other site 409026000588 dimerization interface [polypeptide binding]; other site 409026000589 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026000590 Walker A motif; other site 409026000591 ATP binding site [chemical binding]; other site 409026000592 Walker B motif; other site 409026000593 arginine finger; other site 409026000594 Helix-turn-helix domains; Region: HTH; cl00088 409026000595 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 409026000596 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 409026000597 dimer interface [polypeptide binding]; other site 409026000598 phosphorylation site [posttranslational modification] 409026000599 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 409026000600 ATP binding site [chemical binding]; other site 409026000601 Mg2+ binding site [ion binding]; other site 409026000602 G-X-G motif; other site 409026000603 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 409026000604 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 409026000605 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 409026000606 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 409026000607 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 409026000608 putative C-terminal domain interface [polypeptide binding]; other site 409026000609 putative GSH binding site (G-site) [chemical binding]; other site 409026000610 putative dimer interface [polypeptide binding]; other site 409026000611 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 409026000612 N-terminal domain interface [polypeptide binding]; other site 409026000613 dimer interface [polypeptide binding]; other site 409026000614 substrate binding pocket (H-site) [chemical binding]; other site 409026000615 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 409026000616 potential catalytic triad [active] 409026000617 conserved cys residue [active] 409026000618 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 409026000619 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 409026000620 dimer interface [polypeptide binding]; other site 409026000621 active site 409026000622 metal binding site [ion binding]; metal-binding site 409026000623 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 409026000624 Helix-turn-helix domains; Region: HTH; cl00088 409026000625 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 409026000626 Helix-turn-helix domains; Region: HTH; cl00088 409026000627 Domain of unknown function (DUF1864); Region: DUF1864; pfam08933 409026000628 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 409026000629 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 409026000630 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 409026000631 catalytic residue [active] 409026000632 VPS10 domain; Region: VPS10; smart00602 409026000633 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 409026000634 non-specific DNA binding site [nucleotide binding]; other site 409026000635 salt bridge; other site 409026000636 sequence-specific DNA binding site [nucleotide binding]; other site 409026000637 CrcB-like protein; Region: CRCB; cl09114 409026000638 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 409026000639 glutamine synthetase; Provisional; Region: glnA; PRK09469 409026000640 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 409026000641 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 409026000642 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 409026000643 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 409026000644 G1 box; other site 409026000645 putative GEF interaction site [polypeptide binding]; other site 409026000646 GTP/Mg2+ binding site [chemical binding]; other site 409026000647 Switch I region; other site 409026000648 G2 box; other site 409026000649 G3 box; other site 409026000650 Switch II region; other site 409026000651 G4 box; other site 409026000652 G5 box; other site 409026000653 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 409026000654 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 409026000655 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 409026000656 rhombotail lipoprotein; Region: rhombo_lipo; TIGR04179 409026000657 Predicted membrane protein [Function unknown]; Region: COG2311 409026000658 Protein of unknown function (DUF418); Region: DUF418; cl12135 409026000659 Protein of unknown function (DUF418); Region: DUF418; cl12135 409026000660 4Fe-4S binding domain; Region: Fer4_5; pfam12801 409026000661 4Fe-4S binding domain; Region: Fer4_5; pfam12801 409026000662 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 409026000663 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 409026000664 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 409026000665 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 409026000666 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 409026000667 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 409026000668 putative active site [active] 409026000669 dimerization interface [polypeptide binding]; other site 409026000670 putative tRNAtyr binding site [nucleotide binding]; other site 409026000671 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 409026000672 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 409026000673 active site residue [active] 409026000674 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 409026000675 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 409026000676 dimer interface [polypeptide binding]; other site 409026000677 active site 409026000678 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 409026000679 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026000680 NAD(P) binding site [chemical binding]; other site 409026000681 active site 409026000682 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 409026000683 putative active site 1 [active] 409026000684 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 409026000685 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 409026000686 dimer interface [polypeptide binding]; other site 409026000687 active site 409026000688 Protein of unknown function (DUF3261); Region: DUF3261; pfam11659 409026000689 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 409026000690 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026000691 Predicted exporter [General function prediction only]; Region: COG4258 409026000692 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 409026000693 active site 409026000694 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 409026000695 active sites [active] 409026000696 tetramer interface [polypeptide binding]; other site 409026000697 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 409026000698 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 409026000699 Ligand binding site; other site 409026000700 Putative Catalytic site; other site 409026000701 DXD motif; other site 409026000702 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 409026000703 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 409026000704 putative acyl-acceptor binding pocket; other site 409026000705 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 409026000706 active site 2 [active] 409026000707 dimer interface [polypeptide binding]; other site 409026000708 active site 1 [active] 409026000709 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 409026000710 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 409026000711 Predicted membrane protein [Function unknown]; Region: COG4648 409026000712 Phosphopantetheine attachment site; Region: PP-binding; cl09936 409026000713 Phosphopantetheine attachment site; Region: PP-binding; cl09936 409026000714 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 409026000715 putative acyl-acceptor binding pocket; other site 409026000716 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 409026000717 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 409026000718 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 409026000719 Y-family of DNA polymerases; Region: PolY; cl12025 409026000720 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 409026000721 generic binding surface II; other site 409026000722 ssDNA binding site; other site 409026000723 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 409026000724 ATP binding site [chemical binding]; other site 409026000725 putative Mg++ binding site [ion binding]; other site 409026000726 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 409026000727 nucleotide binding region [chemical binding]; other site 409026000728 ATP-binding site [chemical binding]; other site 409026000729 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 409026000730 active site 409026000731 phosphorylation site [posttranslational modification] 409026000732 intermolecular recognition site; other site 409026000733 dimerization interface [polypeptide binding]; other site 409026000734 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 409026000735 DNA binding residues [nucleotide binding] 409026000736 dimerization interface [polypeptide binding]; other site 409026000737 Histidine kinase; Region: HisKA_3; pfam07730 409026000738 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 409026000739 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 409026000740 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 409026000741 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 409026000742 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 409026000743 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 409026000744 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 409026000745 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 409026000746 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 409026000747 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 409026000748 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 409026000749 homotrimer interaction site [polypeptide binding]; other site 409026000750 putative active site [active] 409026000751 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 409026000752 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 409026000753 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 409026000754 synthetase active site [active] 409026000755 NTP binding site [chemical binding]; other site 409026000756 metal binding site [ion binding]; metal-binding site 409026000757 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 409026000758 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 409026000759 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 409026000760 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 409026000761 catalytic site [active] 409026000762 G-X2-G-X-G-K; other site 409026000763 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 409026000764 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: Arch_glmU; TIGR03992 409026000765 active site 409026000766 Phosphotransferase enzyme family; Region: APH; pfam01636 409026000767 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cl15691 409026000768 substrate binding site [chemical binding]; other site 409026000769 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 409026000770 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 409026000771 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 409026000772 Uncharacterised ACR, COG2135; Region: DUF159; cl03646 409026000773 Surface antigen; Region: Surface_Ag_2; cl01155 409026000774 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 409026000775 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 409026000776 nucleophilic elbow; other site 409026000777 catalytic triad; other site 409026000778 Protein of unknown function (DUF4056); Region: DUF4056; pfam13265 409026000779 Surface antigen; Region: Bac_surface_Ag; cl03097 409026000780 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 409026000781 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 409026000782 homodimer interface [polypeptide binding]; other site 409026000783 substrate-cofactor binding pocket; other site 409026000784 catalytic residue [active] 409026000785 Gram-negative bacterial tonB protein; Region: TonB; cl10048 409026000786 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 409026000787 putative acyl-acceptor binding pocket; other site 409026000788 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 409026000789 putative acyl-acceptor binding pocket; other site 409026000790 Mg chelatase-related protein; Region: TIGR00368 409026000791 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026000792 Walker A motif; other site 409026000793 ATP binding site [chemical binding]; other site 409026000794 Walker B motif; other site 409026000795 arginine finger; other site 409026000796 LysE type translocator; Region: LysE; cl00565 409026000797 GGGtGRT protein; Region: GGGtGRT; pfam14057 409026000798 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 409026000799 putative metal dependent hydrolase; Provisional; Region: PRK11598 409026000800 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 409026000801 Sulfatase; Region: Sulfatase; cl10460 409026000802 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 409026000803 active site 409026000804 catalytic residues [active] 409026000805 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 409026000806 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 409026000807 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 409026000808 Helix-turn-helix domains; Region: HTH; cl00088 409026000809 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 409026000810 substrate binding pocket [chemical binding]; other site 409026000811 dimerization interface [polypeptide binding]; other site 409026000812 Helix-turn-helix domains; Region: HTH; cl00088 409026000813 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 409026000814 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 409026000815 putative dimerization interface [polypeptide binding]; other site 409026000816 ketol-acid reductoisomerase; Validated; Region: PRK05225 409026000817 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026000818 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 409026000819 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 409026000820 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 409026000821 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 409026000822 PYR/PP interface [polypeptide binding]; other site 409026000823 dimer interface [polypeptide binding]; other site 409026000824 TPP binding site [chemical binding]; other site 409026000825 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 409026000826 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 409026000827 TPP-binding site [chemical binding]; other site 409026000828 dimer interface [polypeptide binding]; other site 409026000829 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 409026000830 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 409026000831 homodimer interface [polypeptide binding]; other site 409026000832 substrate-cofactor binding pocket; other site 409026000833 Aminotransferase class IV; Region: Aminotran_4; pfam01063 409026000834 catalytic residue [active] 409026000835 Dehydratase family; Region: ILVD_EDD; cl00340 409026000836 threonine dehydratase; Reviewed; Region: PRK09224 409026000837 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 409026000838 tetramer interface [polypeptide binding]; other site 409026000839 pyridoxal 5'-phosphate binding site [chemical binding]; other site 409026000840 catalytic residue [active] 409026000841 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 409026000842 putative Ile/Val binding site [chemical binding]; other site 409026000843 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 409026000844 putative Ile/Val binding site [chemical binding]; other site 409026000845 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 409026000846 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 409026000847 homodimer interface [polypeptide binding]; other site 409026000848 pyridoxal 5'-phosphate binding site [chemical binding]; other site 409026000849 catalytic residue [active] 409026000850 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 409026000851 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 409026000852 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 409026000853 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 409026000854 Helix-turn-helix domains; Region: HTH; cl00088 409026000855 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 409026000856 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 409026000857 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 409026000858 putative DNA binding site [nucleotide binding]; other site 409026000859 putative Zn2+ binding site [ion binding]; other site 409026000860 Helix-turn-helix domains; Region: HTH; cl00088 409026000861 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 409026000862 active site 409026000863 Protein of unknown function, DUF417; Region: DUF417; cl01162 409026000864 Membrane fusogenic activity; Region: BMFP; cl01115 409026000865 multidrug efflux protein; Reviewed; Region: PRK09579 409026000866 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 409026000867 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 409026000868 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 409026000869 Helix-turn-helix domains; Region: HTH; cl00088 409026000870 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 409026000871 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026000872 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 409026000873 GAF domain; Region: GAF; cl00853 409026000874 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 409026000875 GAF domain; Region: GAF; cl00853 409026000876 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026000877 metal binding site [ion binding]; metal-binding site 409026000878 active site 409026000879 I-site; other site 409026000880 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 409026000881 MltA-interacting protein MipA; Region: MipA; cl01504 409026000882 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 409026000883 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 409026000884 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 409026000885 dimer interface [polypeptide binding]; other site 409026000886 phosphorylation site [posttranslational modification] 409026000887 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 409026000888 ATP binding site [chemical binding]; other site 409026000889 Mg2+ binding site [ion binding]; other site 409026000890 G-X-G motif; other site 409026000891 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 409026000892 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 409026000893 active site 409026000894 phosphorylation site [posttranslational modification] 409026000895 intermolecular recognition site; other site 409026000896 dimerization interface [polypeptide binding]; other site 409026000897 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 409026000898 DNA binding site [nucleotide binding] 409026000899 Protein of unknown function (DUF3019); Region: DUF3019; pfam11456 409026000900 MltA-interacting protein MipA; Region: MipA; cl01504 409026000901 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 409026000902 dimerization interface [polypeptide binding]; other site 409026000903 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026000904 metal binding site [ion binding]; metal-binding site 409026000905 active site 409026000906 I-site; other site 409026000907 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 409026000908 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 409026000909 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 409026000910 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 409026000911 ligand binding site [chemical binding]; other site 409026000912 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 409026000913 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 409026000914 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 409026000915 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 409026000916 putative active site [active] 409026000917 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 409026000918 ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two...; Region: ABCC_bacteriocin_exporters; cd03245 409026000919 Walker A/P-loop; other site 409026000920 ATP binding site [chemical binding]; other site 409026000921 Q-loop/lid; other site 409026000922 ABC transporter signature motif; other site 409026000923 Walker B; other site 409026000924 D-loop; other site 409026000925 H-loop/switch region; other site 409026000926 Calx-beta domain; Region: Calx-beta; cl02522 409026000927 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 409026000928 metal ion-dependent adhesion site (MIDAS); other site 409026000929 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 409026000930 type 1 secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 409026000931 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026000932 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026000933 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026000934 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026000935 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 409026000936 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 409026000937 metal ion-dependent adhesion site (MIDAS); other site 409026000938 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 409026000939 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026000940 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026000941 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026000942 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026000943 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 409026000944 HemY protein N-terminus; Region: HemY_N; pfam07219 409026000945 HemX; Region: HemX; cl14667 409026000946 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 409026000947 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 409026000948 active site 409026000949 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 409026000950 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 409026000951 domain interfaces; other site 409026000952 active site 409026000953 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 409026000954 adenylate cyclase; Provisional; Region: cyaA; PRK09450 409026000955 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 409026000956 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate in...; Region: Frataxin; cl00238 409026000957 putative iron binding site [ion binding]; other site 409026000958 diaminopimelate decarboxylase; Region: lysA; TIGR01048 409026000959 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 409026000960 active site 409026000961 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 409026000962 substrate binding site [chemical binding]; other site 409026000963 catalytic residues [active] 409026000964 dimer interface [polypeptide binding]; other site 409026000965 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 409026000966 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 409026000967 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 409026000968 Protein of unknown function, DUF484; Region: DUF484; cl01228 409026000969 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 409026000970 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 409026000971 DNA binding site [nucleotide binding] 409026000972 Int/Topo IB signature motif; other site 409026000973 active site 409026000974 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 409026000975 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 409026000976 motif II; other site 409026000977 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 409026000978 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 409026000979 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 409026000980 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 409026000981 Kelch motif; Region: Kelch_1; cl02701 409026000982 LemA family; Region: LemA; cl00742 409026000983 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 409026000984 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 409026000985 TadE-like protein; Region: TadE; pfam07811 409026000986 TadE-like protein; Region: TadE; pfam07811 409026000987 Predicted membrane protein (DUF2134); Region: DUF2134; pfam09977 409026000988 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 409026000989 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 409026000990 catalytic triad [active] 409026000991 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 409026000992 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 409026000993 putative active site [active] 409026000994 metal binding site [ion binding]; metal-binding site 409026000995 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 409026000996 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 409026000997 NAD(P) binding site [chemical binding]; other site 409026000998 catalytic residues [active] 409026000999 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 409026001000 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 409026001001 Helix-turn-helix domains; Region: HTH; cl00088 409026001002 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 409026001003 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 409026001004 FMN binding site [chemical binding]; other site 409026001005 active site 409026001006 catalytic residues [active] 409026001007 substrate binding site [chemical binding]; other site 409026001008 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 409026001009 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 409026001010 S-adenosylmethionine binding site [chemical binding]; other site 409026001011 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13554 409026001012 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinone...; Region: QFR_TypeB_TM; cd00581 409026001013 Iron-sulfur protein interface; other site 409026001014 proximal heme binding site [chemical binding]; other site 409026001015 distal heme binding site [chemical binding]; other site 409026001016 dimer interface [polypeptide binding]; other site 409026001017 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinone...; Region: QFR_TypeB_TM; cd00581 409026001018 Iron-sulfur protein interface; other site 409026001019 proximal heme binding site [chemical binding]; other site 409026001020 distal heme binding site [chemical binding]; other site 409026001021 dimer interface [polypeptide binding]; other site 409026001022 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 409026001023 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026001024 domain; Region: Succ_DH_flav_C; pfam02910 409026001025 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 409026001026 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026001027 Helix-turn-helix domains; Region: HTH; cl00088 409026001028 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 409026001029 putative effector binding pocket; other site 409026001030 dimerization interface [polypeptide binding]; other site 409026001031 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 409026001032 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 409026001033 transcription termination factor Rho; Provisional; Region: rho; PRK09376 409026001034 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 409026001035 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 409026001036 RNA binding site [nucleotide binding]; other site 409026001037 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 409026001038 multimer interface [polypeptide binding]; other site 409026001039 Walker A motif; other site 409026001040 ATP binding site [chemical binding]; other site 409026001041 Walker B motif; other site 409026001042 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 409026001043 catalytic residues [active] 409026001044 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 409026001045 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 409026001046 ATP binding site [chemical binding]; other site 409026001047 Mg++ binding site [ion binding]; other site 409026001048 motif III; other site 409026001049 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 409026001050 nucleotide binding region [chemical binding]; other site 409026001051 ATP-binding site [chemical binding]; other site 409026001052 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 409026001053 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026001054 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl15700 409026001055 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026001056 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 409026001057 catalytic residues [active] 409026001058 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_aspartate_rich; cd04823 409026001059 dimer interface [polypeptide binding]; other site 409026001060 active site 409026001061 aspartate-rich active site metal binding site; other site 409026001062 allosteric magnesium binding site [ion binding]; other site 409026001063 Schiff base residues; other site 409026001064 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 409026001065 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 409026001066 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026001067 metal binding site [ion binding]; metal-binding site 409026001068 active site 409026001069 I-site; other site 409026001070 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 409026001071 active site 409026001072 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 409026001073 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 409026001074 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 409026001075 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 409026001076 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cl15691 409026001077 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 409026001078 SCP-2 sterol transfer family; Region: SCP2; cl01225 409026001079 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 409026001080 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 409026001081 S-adenosylmethionine binding site [chemical binding]; other site 409026001082 Arginase family; Region: Arginase; cl00306 409026001083 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 409026001084 PAP2, subfamily similar to human phosphatidic_acid_phosphatase_type_2_domain_containing_2. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to eukaryota, lacks functional characterization and may act as a...; Region: PAP2_containing_2_like; cd03391 409026001085 active site 409026001086 conserved hypothetical protein; Region: MJ1255; TIGR00661 409026001087 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 409026001088 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 409026001089 ligand binding site [chemical binding]; other site 409026001090 flexible hinge region; other site 409026001091 putative transporter; Provisional; Region: PRK03699 409026001092 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 409026001093 putative substrate translocation pore; other site 409026001094 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 409026001095 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 409026001096 Protein of unknown function (DUF971); Region: DUF971; cl01414 409026001097 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 409026001098 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026001099 Walker A motif; other site 409026001100 ATP binding site [chemical binding]; other site 409026001101 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026001102 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 409026001103 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 409026001104 active site 409026001105 HslU subunit interaction site [polypeptide binding]; other site 409026001106 RHS Repeat; Region: RHS_repeat; cl11982 409026001107 RHS Repeat; Region: RHS_repeat; cl11982 409026001108 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 409026001109 RHS Repeat; Region: RHS_repeat; cl11982 409026001110 RHS Repeat; Region: RHS_repeat; cl11982 409026001111 RHS Repeat; Region: RHS_repeat; cl11982 409026001112 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 409026001113 RHS protein; Region: RHS; pfam03527 409026001114 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 409026001115 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 409026001116 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 409026001117 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 409026001118 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 409026001119 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 409026001120 Sporulation related domain; Region: SPOR; cl10051 409026001121 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 409026001122 arginine-tRNA ligase; Region: PLN02286 409026001123 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 409026001124 active site 409026001125 HIGH motif; other site 409026001126 KMSK motif region; other site 409026001127 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 409026001128 tRNA binding surface [nucleotide binding]; other site 409026001129 anticodon binding site; other site 409026001130 primosome assembly protein PriA; Validated; Region: PRK05580 409026001131 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 409026001132 ATP binding site [chemical binding]; other site 409026001133 putative Mg++ binding site [ion binding]; other site 409026001134 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026001135 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 409026001136 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 409026001137 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 409026001138 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 409026001139 Malic enzyme, N-terminal domain; Region: malic; pfam00390 409026001140 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 409026001141 putative NAD(P) binding site [chemical binding]; other site 409026001142 regulatory protein CsrD; Provisional; Region: PRK11059 409026001143 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 409026001144 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 409026001145 general secretion pathway protein L; Region: typeII_sec_gspL; TIGR01709 409026001146 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 409026001147 Pilus assembly protein, PilO; Region: PilO; cl01234 409026001148 outer membrane porin HofQ; Provisional; Region: hofQ; PRK10560 409026001149 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 409026001150 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 409026001151 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 409026001152 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 409026001153 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026001154 Walker A motif; other site 409026001155 ATP binding site [chemical binding]; other site 409026001156 Walker B motif; other site 409026001157 arginine finger; other site 409026001158 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 409026001159 TPR motif; other site 409026001160 binding surface 409026001161 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 409026001162 binding surface 409026001163 TPR motif; other site 409026001164 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 409026001165 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 409026001166 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 409026001167 Walker A motif; other site 409026001168 ATP binding site [chemical binding]; other site 409026001169 Walker B motif; other site 409026001170 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 409026001171 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 409026001172 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 409026001173 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 409026001174 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 409026001175 VcfQ bacterial pilus biogenesis protein, lectin domain; Region: lectin_VcfQ; cd06900 409026001176 putative metal binding site [ion binding]; other site 409026001177 rod shape-determining protein MreB; Provisional; Region: PRK13927 409026001178 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 409026001179 ATP binding site [chemical binding]; other site 409026001180 profilin binding site; other site 409026001181 rod shape-determining protein MreC; Provisional; Region: PRK13922 409026001182 rod shape-determining protein MreC; Region: MreC; pfam04085 409026001183 rod shape-determining protein MreD; Region: MreD; cl01087 409026001184 Maf-like protein; Region: Maf; pfam02545 409026001185 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 409026001186 active site 409026001187 dimer interface [polypeptide binding]; other site 409026001188 ribonuclease G; Provisional; Region: PRK11712 409026001189 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 409026001190 homodimer interface [polypeptide binding]; other site 409026001191 oligonucleotide binding site [chemical binding]; other site 409026001192 TIGR02099 family protein; Region: TIGR02099 409026001193 hypothetical protein; Provisional; Region: PRK10899 409026001194 Predicted amidohydrolase [General function prediction only]; Region: COG0388 409026001195 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 409026001196 putative active site [active] 409026001197 catalytic triad [active] 409026001198 dimer interface [polypeptide binding]; other site 409026001199 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 409026001200 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 409026001201 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 409026001202 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 409026001203 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 409026001204 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 409026001205 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 409026001206 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 409026001207 Protein of unknown function (DUF615); Region: DUF615; cl01147 409026001208 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 409026001209 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 409026001210 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 409026001211 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 409026001212 dimerization interface [polypeptide binding]; other site 409026001213 putative DNA binding site [nucleotide binding]; other site 409026001214 putative Zn2+ binding site [ion binding]; other site 409026001215 Membrane transport protein; Region: Mem_trans; cl09117 409026001216 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 409026001217 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 409026001218 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 409026001219 Major Facilitator Superfamily; Region: MFS_1; pfam07690 409026001220 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 409026001221 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 409026001222 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 409026001223 IHF dimer interface [polypeptide binding]; other site 409026001224 IHF - DNA interface [nucleotide binding]; other site 409026001225 Response regulator receiver domain; Region: Response_reg; pfam00072 409026001226 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 409026001227 active site 409026001228 phosphorylation site [posttranslational modification] 409026001229 intermolecular recognition site; other site 409026001230 dimerization interface [polypeptide binding]; other site 409026001231 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 409026001232 active site 409026001233 phosphorylation site [posttranslational modification] 409026001234 intermolecular recognition site; other site 409026001235 dimerization interface [polypeptide binding]; other site 409026001236 Protein of unknown function (DUF4240); Region: DUF4240; pfam14024 409026001237 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 409026001238 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 409026001239 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 409026001240 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026001241 metal binding site [ion binding]; metal-binding site 409026001242 active site 409026001243 I-site; other site 409026001244 TraB family; Region: TraB; cl12050 409026001245 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 409026001246 active site 2 [active] 409026001247 active site 1 [active] 409026001248 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 409026001249 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 409026001250 active site 409026001251 catalytic tetrad [active] 409026001252 formate--tetrahydrofolate ligase; Provisional; Region: PRK13506 409026001253 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 409026001254 Potassium binding sites [ion binding]; other site 409026001255 Cesium cation binding sites [ion binding]; other site 409026001256 Mechanosensitive ion channel; Region: MS_channel; pfam00924 409026001257 Periplasmic binding protein TroA_c. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_c; cd01145 409026001258 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 409026001259 putative ligand binding site [chemical binding]; other site 409026001260 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 409026001261 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 409026001262 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 409026001263 putative acyl-acceptor binding pocket; other site 409026001264 RNase E inhibitor protein; Provisional; Region: PRK11191 409026001265 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 409026001266 PAS fold; Region: PAS_4; pfam08448 409026001267 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026001268 metal binding site [ion binding]; metal-binding site 409026001269 active site 409026001270 I-site; other site 409026001271 Response regulator receiver domain; Region: Response_reg; pfam00072 409026001272 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 409026001273 active site 409026001274 phosphorylation site [posttranslational modification] 409026001275 intermolecular recognition site; other site 409026001276 dimerization interface [polypeptide binding]; other site 409026001277 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 409026001278 enoyl-CoA hydratase; Provisional; Region: PRK07509 409026001279 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 409026001280 substrate binding site [chemical binding]; other site 409026001281 oxyanion hole (OAH) forming residues; other site 409026001282 trimer interface [polypeptide binding]; other site 409026001283 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 409026001284 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 409026001285 ATP-dependent helicase HepA; Validated; Region: PRK04914 409026001286 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 409026001287 ATP binding site [chemical binding]; other site 409026001288 putative Mg++ binding site [ion binding]; other site 409026001289 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 409026001290 nucleotide binding region [chemical binding]; other site 409026001291 ATP-binding site [chemical binding]; other site 409026001292 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 409026001293 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 409026001294 putative active site [active] 409026001295 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026001296 putative diguanylate cyclase YedQ; Provisional; Region: PRK15426 409026001297 Cache domain; Region: Cache_1; pfam02743 409026001298 PAS fold; Region: PAS_4; pfam08448 409026001299 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 409026001300 putative active site [active] 409026001301 heme pocket [chemical binding]; other site 409026001302 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 409026001303 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 409026001304 putative active site [active] 409026001305 heme pocket [chemical binding]; other site 409026001306 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 409026001307 dimer interface [polypeptide binding]; other site 409026001308 phosphorylation site [posttranslational modification] 409026001309 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 409026001310 ATP binding site [chemical binding]; other site 409026001311 Mg2+ binding site [ion binding]; other site 409026001312 G-X-G motif; other site 409026001313 Response regulator receiver domain; Region: Response_reg; pfam00072 409026001314 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 409026001315 active site 409026001316 phosphorylation site [posttranslational modification] 409026001317 intermolecular recognition site; other site 409026001318 dimerization interface [polypeptide binding]; other site 409026001319 Response regulator receiver domain; Region: Response_reg; pfam00072 409026001320 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 409026001321 active site 409026001322 phosphorylation site [posttranslational modification] 409026001323 intermolecular recognition site; other site 409026001324 dimerization interface [polypeptide binding]; other site 409026001325 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 409026001326 active site 409026001327 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 409026001328 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 409026001329 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 409026001330 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026001331 Helix-turn-helix domains; Region: HTH; cl00088 409026001332 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 409026001333 putative effector binding pocket; other site 409026001334 dimerization interface [polypeptide binding]; other site 409026001335 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 409026001336 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 409026001337 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 409026001338 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 409026001339 MatE; Region: MatE; cl10513 409026001340 MatE; Region: MatE; cl10513 409026001341 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 409026001342 oligomerisation interface [polypeptide binding]; other site 409026001343 mobile loop; other site 409026001344 roof hairpin; other site 409026001345 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 409026001346 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 409026001347 ring oligomerisation interface [polypeptide binding]; other site 409026001348 ATP/Mg binding site [chemical binding]; other site 409026001349 stacking interactions; other site 409026001350 hinge regions; other site 409026001351 Nuclease-related domain; Region: NERD; pfam08378 409026001352 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 409026001353 active site 409026001354 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 409026001355 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 409026001356 Surface antigen; Region: Bac_surface_Ag; cl03097 409026001357 Surface antigen; Region: Surface_Ag_2; cl01155 409026001358 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 409026001359 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 409026001360 dimer interface [polypeptide binding]; other site 409026001361 PYR/PP interface [polypeptide binding]; other site 409026001362 TPP binding site [chemical binding]; other site 409026001363 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 409026001364 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 409026001365 TPP-binding site [chemical binding]; other site 409026001366 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026001367 Helix-turn-helix domains; Region: HTH; cl00088 409026001368 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 409026001369 dimerization interface [polypeptide binding]; other site 409026001370 MarC family integral membrane protein; Region: MarC; cl00919 409026001371 Surface antigen; Region: Bac_surface_Ag; cl03097 409026001372 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 409026001373 Protein of unknown function (DUF2785); Region: DUF2785; pfam10978 409026001374 CCGSCS motif protein; Region: CCGSCS; TIGR04101 409026001375 Mannan-binding protein; Region: MVL; pfam12151 409026001376 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; cl10556 409026001377 Cytochrome c552; Region: Cytochrom_C552; pfam02335 409026001378 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; cl10556 409026001379 Cytochrome c552; Region: Cytochrom_C552; pfam02335 409026001380 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl15358 409026001381 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 409026001382 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 409026001383 EamA-like transporter family; Region: EamA; cl01037 409026001384 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 409026001385 Helix-turn-helix domains; Region: HTH; cl00088 409026001386 Protein of unknown function (DUF2999); Region: DUF2999; pfam11212 409026001387 Predicted permease; Region: DUF318; cl00487 409026001388 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 409026001389 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 409026001390 dimerization interface [polypeptide binding]; other site 409026001391 putative DNA binding site [nucleotide binding]; other site 409026001392 putative Zn2+ binding site [ion binding]; other site 409026001393 Domain of Unknown Function with PDB structure; Region: DUF3857; pfam12969 409026001394 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 409026001395 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 409026001396 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 409026001397 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cd00136 409026001398 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 409026001399 Active site serine [active] 409026001400 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 409026001401 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 409026001402 dimer interface [polypeptide binding]; other site 409026001403 pyridoxal 5'-phosphate binding site [chemical binding]; other site 409026001404 catalytic residue [active] 409026001405 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 409026001406 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 409026001407 substrate binding site [chemical binding]; other site 409026001408 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 409026001409 sensory histidine kinase DcuS; Provisional; Region: PRK11086 409026001410 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026001411 metal binding site [ion binding]; metal-binding site 409026001412 active site 409026001413 I-site; other site 409026001414 Domain of unknown function (DUF1888); Region: DUF1888; pfam08985 409026001415 Domain of unknown function (DUF1888); Region: DUF1888; pfam08985 409026001416 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 409026001417 DNA binding site [nucleotide binding] 409026001418 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026001419 Walker A/P-loop; other site 409026001420 ATP binding site [chemical binding]; other site 409026001421 TOBE domain; Region: TOBE_2; cl01440 409026001422 N-terminal Early set domain associated with the catalytic domain of chitinase; Region: E_set_Chitinase_N; cd02848 409026001423 Glyco_18 domain; Region: Glyco_18; smart00636 409026001424 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 409026001425 active site 409026001426 REJ domain; Region: REJ; pfam02010 409026001427 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 409026001428 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 409026001429 chitin/cellulose binding site [chemical binding]; other site 409026001430 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 409026001431 chitin/cellulose binding site [chemical binding]; other site 409026001432 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 409026001433 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026001434 Ferritin-like; Region: Ferritin-like; pfam12902 409026001435 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 409026001436 Major Facilitator Superfamily; Region: MFS_1; pfam07690 409026001437 putative substrate translocation pore; other site 409026001438 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 409026001439 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 409026001440 GAF domain; Region: GAF; cl00853 409026001441 Helix-turn-helix domains; Region: HTH; cl00088 409026001442 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 409026001443 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 409026001444 dimer interface [polypeptide binding]; other site 409026001445 phosphorylation site [posttranslational modification] 409026001446 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 409026001447 ATP binding site [chemical binding]; other site 409026001448 Mg2+ binding site [ion binding]; other site 409026001449 G-X-G motif; other site 409026001450 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 409026001451 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 409026001452 active site 409026001453 phosphorylation site [posttranslational modification] 409026001454 intermolecular recognition site; other site 409026001455 dimerization interface [polypeptide binding]; other site 409026001456 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 409026001457 DNA binding site [nucleotide binding] 409026001458 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 409026001459 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 409026001460 Ligand binding site; other site 409026001461 Putative Catalytic site; other site 409026001462 DXD motif; other site 409026001463 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl15364 409026001464 GtrA-like protein; Region: GtrA; cl00971 409026001465 Family description; Region: VCBS; pfam13517 409026001466 Family description; Region: VCBS; pfam13517 409026001467 Family description; Region: VCBS; pfam13517 409026001468 putative outer membrane lipoprotein; Provisional; Region: PRK10510 409026001469 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 409026001470 ligand binding site [chemical binding]; other site 409026001471 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 409026001472 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 409026001473 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 409026001474 MgtE intracellular N domain; Region: MgtE_N; cl15244 409026001475 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 409026001476 Divalent cation transporter; Region: MgtE; cl00786 409026001477 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 409026001478 dimerization domain swap beta strand [polypeptide binding]; other site 409026001479 regulatory protein interface [polypeptide binding]; other site 409026001480 active site 409026001481 regulatory phosphorylation site [posttranslational modification]; other site 409026001482 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026001483 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 409026001484 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 409026001485 active site 409026001486 phosphorylation site [posttranslational modification] 409026001487 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 409026001488 30S subunit binding site; other site 409026001489 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 409026001490 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 409026001491 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 409026001492 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 409026001493 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 409026001494 Walker A/P-loop; other site 409026001495 ATP binding site [chemical binding]; other site 409026001496 Q-loop/lid; other site 409026001497 ABC transporter signature motif; other site 409026001498 Walker B; other site 409026001499 D-loop; other site 409026001500 H-loop/switch region; other site 409026001501 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 409026001502 OstA-like protein; Region: OstA; cl00844 409026001503 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 409026001504 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 409026001505 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 409026001506 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 409026001507 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 409026001508 putative active site [active] 409026001509 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 409026001510 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 409026001511 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 409026001512 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 409026001513 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 409026001514 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 409026001515 Walker A/P-loop; other site 409026001516 ATP binding site [chemical binding]; other site 409026001517 Q-loop/lid; other site 409026001518 ABC transporter signature motif; other site 409026001519 Walker B; other site 409026001520 D-loop; other site 409026001521 H-loop/switch region; other site 409026001522 Domain of unknown function DUF140; Region: DUF140; cl00510 409026001523 mce related protein; Region: MCE; cl15431 409026001524 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; cl01074 409026001525 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 409026001526 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 409026001527 anti sigma factor interaction site; other site 409026001528 regulatory phosphorylation site [posttranslational modification]; other site 409026001529 BolA-like protein; Region: BolA; cl00386 409026001530 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 409026001531 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 409026001532 hinge; other site 409026001533 active site 409026001534 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 409026001535 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 409026001536 dimer interface [polypeptide binding]; other site 409026001537 phosphorylation site [posttranslational modification] 409026001538 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 409026001539 ATP binding site [chemical binding]; other site 409026001540 Mg2+ binding site [ion binding]; other site 409026001541 G-X-G motif; other site 409026001542 Response regulator receiver domain; Region: Response_reg; pfam00072 409026001543 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 409026001544 active site 409026001545 phosphorylation site [posttranslational modification] 409026001546 intermolecular recognition site; other site 409026001547 dimerization interface [polypeptide binding]; other site 409026001548 Helix-turn-helix domains; Region: HTH; cl00088 409026001549 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 409026001550 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 409026001551 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 triad...; Region: Tryp_SPc; cl00149 409026001552 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 409026001553 protein binding site [polypeptide binding]; other site 409026001554 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 409026001555 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 triad...; Region: Tryp_SPc; cl00149 409026001556 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 409026001557 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 409026001558 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 409026001559 Predicted ATPase [General function prediction only]; Region: COG1485 409026001560 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 409026001561 23S rRNA interface [nucleotide binding]; other site 409026001562 L3 interface [polypeptide binding]; other site 409026001563 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 409026001564 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 409026001565 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 409026001566 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 409026001567 GDP-binding site [chemical binding]; other site 409026001568 ACT binding site; other site 409026001569 IMP binding site; other site 409026001570 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 409026001571 exoribonuclease R; Provisional; Region: PRK11642 409026001572 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 409026001573 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 409026001574 RNB domain; Region: RNB; pfam00773 409026001575 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 important...; Region: S1_RNase_R; cd04471 409026001576 RNA binding site [nucleotide binding]; other site 409026001577 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 409026001578 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 409026001579 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 409026001580 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 409026001581 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 409026001582 Protein of unknown function, DUF481; Region: DUF481; cl01213 409026001583 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 409026001584 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 409026001585 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 409026001586 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 409026001587 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 409026001588 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 409026001589 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl15700 409026001590 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 409026001591 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026001592 Peptidase S46; Region: Peptidase_S46; pfam10459 409026001593 replicative DNA helicase; Provisional; Region: PRK08840 409026001594 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 409026001595 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 409026001596 Walker A motif; other site 409026001597 ATP binding site [chemical binding]; other site 409026001598 Walker B motif; other site 409026001599 DNA binding loops [nucleotide binding] 409026001600 alanine racemase; Reviewed; Region: alr; PRK00053 409026001601 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 409026001602 active site 409026001603 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 409026001604 substrate binding site [chemical binding]; other site 409026001605 catalytic residues [active] 409026001606 dimer interface [polypeptide binding]; other site 409026001607 Surface antigen; Region: Bac_surface_Ag; cl03097 409026001608 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 409026001609 Helix-turn-helix domains; Region: HTH; cl00088 409026001610 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 409026001611 dimerization interface [polypeptide binding]; other site 409026001612 Helix-turn-helix domains; Region: HTH; cl00088 409026001613 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 409026001614 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 409026001615 dimerization interface [polypeptide binding]; other site 409026001616 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 409026001617 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 409026001618 molybdopterin cofactor binding site; other site 409026001619 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 409026001620 putative molybdopterin cofactor binding site; other site 409026001621 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 409026001622 4Fe-4S binding domain; Region: Fer4; cl02805 409026001623 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 409026001624 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 409026001625 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 409026001626 FMN binding site [chemical binding]; other site 409026001627 active site 409026001628 catalytic residues [active] 409026001629 substrate binding site [chemical binding]; other site 409026001630 PspC domain; Region: PspC; cl00864 409026001631 enoyl-CoA hydratase; Provisional; Region: PRK06688 409026001632 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 409026001633 substrate binding site [chemical binding]; other site 409026001634 oxyanion hole (OAH) forming residues; other site 409026001635 trimer interface [polypeptide binding]; other site 409026001636 Protein of unknown function (DUF461); Region: DUF461; cl01071 409026001637 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; cl11978 409026001638 Protein of unknown function (DUF2390); Region: DUF2390; cl02376 409026001639 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 409026001640 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026001641 Walker A/P-loop; other site 409026001642 ATP binding site [chemical binding]; other site 409026001643 Q-loop/lid; other site 409026001644 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 facilitated...; Region: ABCF_EF-3; cd03221 409026001645 ABC transporter; Region: ABC_tran_2; pfam12848 409026001646 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 facilitated...; Region: ABCF_EF-3; cd03221 409026001647 Probable metal-binding protein (DUF2387); Region: DUF2387; cl01410 409026001648 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 409026001649 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 409026001650 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 409026001651 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 409026001652 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 409026001653 ATP binding site [chemical binding]; other site 409026001654 Mg++ binding site [ion binding]; other site 409026001655 motif III; other site 409026001656 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 409026001657 nucleotide binding region [chemical binding]; other site 409026001658 ATP-binding site [chemical binding]; other site 409026001659 DbpA RNA binding domain; Region: DbpA; pfam03880 409026001660 HDOD domain; Region: HDOD; pfam08668 409026001661 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 409026001662 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 409026001663 inhibitor-cofactor binding pocket; inhibition site 409026001664 pyridoxal 5'-phosphate binding site [chemical binding]; other site 409026001665 catalytic residue [active] 409026001666 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 409026001667 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 409026001668 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 409026001669 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 409026001670 NAD(P) binding site [chemical binding]; other site 409026001671 catalytic residues [active] 409026001672 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 409026001673 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 409026001674 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 409026001675 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 409026001676 dimer interface [polypeptide binding]; other site 409026001677 phosphorylation site [posttranslational modification] 409026001678 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 409026001679 ATP binding site [chemical binding]; other site 409026001680 Mg2+ binding site [ion binding]; other site 409026001681 G-X-G motif; other site 409026001682 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 409026001683 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 409026001684 active site 409026001685 phosphorylation site [posttranslational modification] 409026001686 intermolecular recognition site; other site 409026001687 dimerization interface [polypeptide binding]; other site 409026001688 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 409026001689 DNA binding site [nucleotide binding] 409026001690 Predicted membrane protein [Function unknown]; Region: COG3212 409026001691 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 409026001692 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 409026001693 ligand binding site [chemical binding]; other site 409026001694 flexible hinge region; other site 409026001695 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 409026001696 putative switch regulator; other site 409026001697 non-specific DNA interactions [nucleotide binding]; other site 409026001698 DNA binding site [nucleotide binding] 409026001699 sequence specific DNA binding site [nucleotide binding]; other site 409026001700 putative cAMP binding site [chemical binding]; other site 409026001701 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 409026001702 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026001703 active site 409026001704 Uncharacterised protein family (UPF0270); Region: UPF0270; cl01180 409026001705 putative hydrolase; Provisional; Region: PRK10985 409026001706 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026001707 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 409026001708 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 409026001709 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 409026001710 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 409026001711 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 409026001712 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 409026001713 dimer interface [polypeptide binding]; other site 409026001714 ADP-ribose binding site [chemical binding]; other site 409026001715 active site 409026001716 nudix motif; other site 409026001717 metal binding site [ion binding]; metal-binding site 409026001718 Protein of unknown function (DUF1249); Region: DUF1249; cl01223 409026001719 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 409026001720 active site 409026001721 metal binding site [ion binding]; metal-binding site 409026001722 hexamer interface [polypeptide binding]; other site 409026001723 Uncharacterised protein family (UPF0227); Region: UPF0227; cl14886 409026001724 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 409026001725 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 409026001726 ATP binding site [chemical binding]; other site 409026001727 Mg2+ binding site [ion binding]; other site 409026001728 G-X-G motif; other site 409026001729 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 409026001730 anchoring element; other site 409026001731 dimer interface [polypeptide binding]; other site 409026001732 ATP binding site [chemical binding]; other site 409026001733 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 409026001734 active site 409026001735 metal binding site [ion binding]; metal-binding site 409026001736 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 409026001737 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 409026001738 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 409026001739 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 409026001740 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 DNA...; Region: TOP4c; cd00187 409026001741 CAP-like domain; other site 409026001742 active site 409026001743 primary dimer interface [polypeptide binding]; other site 409026001744 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 409026001745 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026001746 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 409026001747 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 409026001748 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 409026001749 active site 409026001750 catalytic site [active] 409026001751 putative mechanosensitive channel protein; Provisional; Region: PRK10929 409026001752 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 409026001753 Mechanosensitive ion channel; Region: MS_channel; pfam00924 409026001754 Predicted permeases [General function prediction only]; Region: RarD; COG2962 409026001755 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 409026001756 GTPase RsgA; Reviewed; Region: PRK12288 409026001757 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 motifs...; Region: YjeQ_engC; cd01854 409026001758 GTPase/OB domain interface [polypeptide binding]; other site 409026001759 GTPase/Zn-binding domain interface [polypeptide binding]; other site 409026001760 GTP/Mg2+ binding site [chemical binding]; other site 409026001761 G4 box; other site 409026001762 G5 box; other site 409026001763 G1 box; other site 409026001764 Switch I region; other site 409026001765 G2 box; other site 409026001766 G3 box; other site 409026001767 Switch II region; other site 409026001768 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 409026001769 putative active site [active] 409026001770 putative substrate binding site [chemical binding]; other site 409026001771 catalytic site [active] 409026001772 dimer interface [polypeptide binding]; other site 409026001773 putative carbohydrate kinase; Provisional; Region: PRK10565 409026001774 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 409026001775 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 409026001776 putative substrate binding site [chemical binding]; other site 409026001777 putative ATP binding site [chemical binding]; other site 409026001778 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 409026001779 Localisation of periplasmic protein complexes; Region: AMIN; pfam11741 409026001780 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 409026001781 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 409026001782 active site 409026001783 metal binding site [ion binding]; metal-binding site 409026001784 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; cd00118 409026001785 putative peptidoglycan binding site; other site 409026001786 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 409026001787 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 409026001788 ATP binding site [chemical binding]; other site 409026001789 Mg2+ binding site [ion binding]; other site 409026001790 G-X-G motif; other site 409026001791 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 409026001792 ATP binding site [chemical binding]; other site 409026001793 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 409026001794 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 409026001795 IPP transferase; Region: IPPT; cl00403 409026001796 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 409026001797 Sm1 motif; other site 409026001798 intra - hexamer interaction site; other site 409026001799 inter - hexamer interaction site [polypeptide binding]; other site 409026001800 nucleotide binding pocket [chemical binding]; other site 409026001801 Sm2 motif; other site 409026001802 GTPase HflX; Provisional; Region: PRK11058 409026001803 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 409026001804 G1 box; other site 409026001805 GTP/Mg2+ binding site [chemical binding]; other site 409026001806 Switch I region; other site 409026001807 G2 box; other site 409026001808 G3 box; other site 409026001809 Switch II region; other site 409026001810 G4 box; other site 409026001811 G5 box; other site 409026001812 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 409026001813 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 409026001814 HflK protein; Region: hflK; TIGR01933 409026001815 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 409026001816 FtsH protease regulator HflC; Provisional; Region: PRK11029 409026001817 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 409026001818 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 409026001819 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 409026001820 [2Fe-2S] cluster binding site [ion binding]; other site 409026001821 cytochrome b; Provisional; Region: CYTB; MTH00145 409026001822 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; cd00284 409026001823 Qi binding site; other site 409026001824 intrachain domain interface; other site 409026001825 interchain domain interface [polypeptide binding]; other site 409026001826 heme bH binding site [chemical binding]; other site 409026001827 heme bL binding site [chemical binding]; other site 409026001828 Qo binding site; other site 409026001829 Cytochrome b(C-terminus)/b6/petD: 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_C; cd00290 409026001830 interchain domain interface [polypeptide binding]; other site 409026001831 intrachain domain interface; other site 409026001832 Qi binding site; other site 409026001833 Qo binding site; other site 409026001834 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 409026001835 stringent starvation protein A; Provisional; Region: sspA; PRK09481 409026001836 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 409026001837 C-terminal domain interface [polypeptide binding]; other site 409026001838 putative GSH binding site (G-site) [chemical binding]; other site 409026001839 dimer interface [polypeptide binding]; other site 409026001840 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 409026001841 dimer interface [polypeptide binding]; other site 409026001842 N-terminal domain interface [polypeptide binding]; other site 409026001843 Stringent starvation protein B; Region: SspB; cl01120 409026001844 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 409026001845 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 409026001846 glutamine binding [chemical binding]; other site 409026001847 catalytic triad [active] 409026001848 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 409026001849 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 409026001850 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 409026001851 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 409026001852 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 409026001853 ATP binding site [chemical binding]; other site 409026001854 Mg++ binding site [ion binding]; other site 409026001855 motif III; other site 409026001856 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 409026001857 nucleotide binding region [chemical binding]; other site 409026001858 ATP-binding site [chemical binding]; other site 409026001859 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 409026001860 Protein of unknown function (DUF3622); Region: DUF3622; pfam12286 409026001861 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 409026001862 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 409026001863 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026001864 Walker A/P-loop; other site 409026001865 ATP binding site [chemical binding]; other site 409026001866 Q-loop/lid; other site 409026001867 ABC transporter signature motif; other site 409026001868 Walker B; other site 409026001869 D-loop; other site 409026001870 H-loop/switch region; other site 409026001871 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 409026001872 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026001873 Walker A/P-loop; other site 409026001874 ATP binding site [chemical binding]; other site 409026001875 Q-loop/lid; other site 409026001876 ABC transporter signature motif; other site 409026001877 Walker B; other site 409026001878 D-loop; other site 409026001879 H-loop/switch region; other site 409026001880 Cache domain; Region: Cache_1; pfam02743 409026001881 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 409026001882 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 409026001883 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 409026001884 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 409026001885 Proline dehydrogenase; Region: Pro_dh; cl03282 409026001886 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 409026001887 Glutamate binding site [chemical binding]; other site 409026001888 NAD binding site [chemical binding]; other site 409026001889 catalytic residues [active] 409026001890 SH3 domain-containing protein; Provisional; Region: PRK10884 409026001891 Bacterial SH3 domain; Region: SH3_3; cl02551 409026001892 Phosphate transporter family; Region: PHO4; cl00396 409026001893 Phosphate transporter family; Region: PHO4; cl00396 409026001894 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 409026001895 Uncharacterized conserved protein [Function unknown]; Region: COG3025 409026001896 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 409026001897 putative active site [active] 409026001898 putative metal binding residues [ion binding]; other site 409026001899 signature motif; other site 409026001900 putative triphosphate binding site [ion binding]; other site 409026001901 Ion transport protein; Region: Ion_trans; pfam00520 409026001902 Ion channel; Region: Ion_trans_2; cl11596 409026001903 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 409026001904 PspA/IM30 family; Region: PspA_IM30; pfam04012 409026001905 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; cl01551 409026001906 spermidine synthase; Provisional; Region: PRK03612 409026001907 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 409026001908 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 409026001909 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 409026001910 metal binding triad; other site 409026001911 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 409026001912 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 409026001913 metal binding triad; other site 409026001914 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 409026001915 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 409026001916 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 409026001917 Protein of unknown function (DUF3224); Region: DUF3224; pfam11528 409026001918 Predicted ATPase [General function prediction only]; Region: COG1485 409026001919 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 409026001920 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 409026001921 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 409026001922 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 409026001923 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 409026001924 GAF domain; Region: GAF; cl00853 409026001925 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026001926 Walker A motif; other site 409026001927 ATP binding site [chemical binding]; other site 409026001928 Walker B motif; other site 409026001929 arginine finger; other site 409026001930 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 409026001931 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 409026001932 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 409026001933 putative acyl-acceptor binding pocket; other site 409026001934 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 409026001935 cellulose synthase; Region: PLN02189 409026001936 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 409026001937 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 409026001938 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 409026001939 cofactor binding site; other site 409026001940 DNA binding site [nucleotide binding] 409026001941 substrate interaction site [chemical binding]; other site 409026001942 SinI restriction endonuclease; Region: RE_SinI; pfam09570 409026001943 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 409026001944 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3809 409026001945 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3809 409026001946 Rhomboid family; Region: Rhomboid; cl11446 409026001947 MltA-interacting protein MipA; Region: MipA; cl01504 409026001948 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 409026001949 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 409026001950 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 409026001951 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 409026001952 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 409026001953 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026001954 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 409026001955 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 409026001956 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 409026001957 FAD binding pocket [chemical binding]; other site 409026001958 FAD binding motif [chemical binding]; other site 409026001959 catalytic residues [active] 409026001960 NAD binding pocket [chemical binding]; other site 409026001961 phosphate binding motif [ion binding]; other site 409026001962 beta-alpha-beta structure motif; other site 409026001963 sulfite reductase subunit beta; Provisional; Region: PRK13504 409026001964 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 409026001965 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 409026001966 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 409026001967 Active Sites [active] 409026001968 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 409026001969 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 409026001970 catalytic triad [active] 409026001971 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 409026001972 tetramer (dimer of dimers) interface [polypeptide binding]; other site 409026001973 active site 409026001974 dimer interface [polypeptide binding]; other site 409026001975 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 409026001976 Transposase; Region: DEDD_Tnp_IS110; pfam01548 409026001977 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 409026001978 Protein of unknown function (DUF808); Region: DUF808; cl01002 409026001979 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 409026001980 Collagenase; Region: Peptidase_M9; pfam01752 409026001981 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 409026001982 PhoD-like phosphatase; Region: PhoD; pfam09423 409026001983 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 409026001984 putative active site [active] 409026001985 putative metal binding site [ion binding]; other site 409026001986 PhoD-like phosphatase; Region: PhoD; pfam09423 409026001987 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 409026001988 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 409026001989 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 409026001990 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 409026001991 Zn binding site [ion binding]; other site 409026001992 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 409026001993 TolB amino-terminal domain; Region: TolB_N; cl00639 409026001994 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 409026001995 SlyX; Region: SlyX; cl01090 409026001996 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 409026001997 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 409026001998 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 409026001999 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 409026002000 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 409026002001 sensor protein RstB; Provisional; Region: PRK10604 409026002002 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 409026002003 dimer interface [polypeptide binding]; other site 409026002004 phosphorylation site [posttranslational modification] 409026002005 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 409026002006 ATP binding site [chemical binding]; other site 409026002007 Mg2+ binding site [ion binding]; other site 409026002008 G-X-G motif; other site 409026002009 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 409026002010 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 409026002011 active site 409026002012 phosphorylation site [posttranslational modification] 409026002013 intermolecular recognition site; other site 409026002014 dimerization interface [polypeptide binding]; other site 409026002015 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 409026002016 DNA binding site [nucleotide binding] 409026002017 Protein of unknown function (DUF3019); Region: DUF3019; pfam11456 409026002018 MltA-interacting protein MipA; Region: MipA; cl01504 409026002019 YcxB-like protein; Region: YcxB; pfam14317 409026002020 Domain of unknown function (DUF1971); Region: DUF1971; cl01451 409026002021 universal stress protein UspE; Provisional; Region: PRK11175 409026002022 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 409026002023 Ligand Binding Site [chemical binding]; other site 409026002024 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 409026002025 short chain dehydrogenase; Provisional; Region: PRK08251 409026002026 classical (c) SDR, subgroup 6; Region: SDR_c6; cd05350 409026002027 putative NAD(P) binding site [chemical binding]; other site 409026002028 active site 409026002029 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 409026002030 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 409026002031 active site 409026002032 metal binding site [ion binding]; metal-binding site 409026002033 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 409026002034 Predicted transcriptional regulator [Transcription]; Region: COG2345 409026002035 Adenosine deaminase z-alpha domain; Region: z-alpha; cl02659 409026002036 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 409026002037 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; cl09940 409026002038 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 409026002039 active site 409026002040 uracil binding [chemical binding]; other site 409026002041 Helix-turn-helix domains; Region: HTH; cl00088 409026002042 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 409026002043 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 409026002044 dimerization interface [polypeptide binding]; other site 409026002045 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 409026002046 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 409026002047 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 409026002048 Major Facilitator Superfamily; Region: MFS_1; pfam07690 409026002049 putative substrate translocation pore; other site 409026002050 LrgB-like family; Region: LrgB; cl00596 409026002051 LrgA family; Region: LrgA; cl00608 409026002052 Proteolipid membrane potential modulator; Region: Pmp3; cl00431 409026002053 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 409026002054 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 409026002055 HIGH motif; other site 409026002056 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 409026002057 active site 409026002058 KMSKS motif; other site 409026002059 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 409026002060 tRNA binding surface [nucleotide binding]; other site 409026002061 anticodon binding site; other site 409026002062 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 409026002063 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 409026002064 Cell division protein ZapA; Region: ZapA; cl01146 409026002065 Uncharacterised protein family (UPF0149); Region: UPF0149; cl01173 409026002066 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026002067 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 409026002068 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026002069 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 409026002070 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 409026002071 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 409026002072 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 409026002073 lipoyl attachment site [posttranslational modification]; other site 409026002074 glycine dehydrogenase; Provisional; Region: PRK05367 409026002075 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 409026002076 tetramer interface [polypeptide binding]; other site 409026002077 pyridoxal 5'-phosphate binding site [chemical binding]; other site 409026002078 catalytic residue [active] 409026002079 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 409026002080 tetramer interface [polypeptide binding]; other site 409026002081 pyridoxal 5'-phosphate binding site [chemical binding]; other site 409026002082 catalytic residue [active] 409026002083 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; cl10556 409026002084 Cytochrome c552; Region: Cytochrom_C552; pfam02335 409026002085 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 409026002086 Cupin domain; Region: Cupin_2; cl09118 409026002087 Helix-turn-helix domain; Region: HTH_18; pfam12833 409026002088 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 409026002089 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 409026002090 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 409026002091 N-terminal plug; other site 409026002092 ligand-binding site [chemical binding]; other site 409026002093 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 409026002094 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 409026002095 active site 409026002096 Domain of unknown function (DUF1842); Region: DUF1842; pfam08896 409026002097 Inclusion body protein; Region: PixA; pfam12306 409026002098 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 409026002099 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 409026002100 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 409026002101 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 409026002102 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 409026002103 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 409026002104 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 409026002105 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12507 409026002106 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 409026002107 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 409026002108 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 409026002109 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 409026002110 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 409026002111 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 409026002112 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 409026002113 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 409026002114 Cephalosporin acylase (CA) belongs to a family of beta-lactam acylases that includes penicillin G acylase (PGA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_CA; cd01936 409026002115 active site 409026002116 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 409026002117 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cl00246 409026002118 FAD binding site [chemical binding]; other site 409026002119 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 409026002120 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 409026002121 NADP binding site [chemical binding]; other site 409026002122 homodimer interface [polypeptide binding]; other site 409026002123 active site 409026002124 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 409026002125 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 409026002126 N-terminal plug; other site 409026002127 ligand-binding site [chemical binding]; other site 409026002128 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 409026002129 catalytic motif [active] 409026002130 Zn binding site [ion binding]; other site 409026002131 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 409026002132 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 409026002133 active site 409026002134 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 409026002135 FOG: CBS domain [General function prediction only]; Region: COG0517 409026002136 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 409026002137 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 409026002138 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 409026002139 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 409026002140 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026002141 Helix-turn-helix domains; Region: HTH; cl00088 409026002142 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 409026002143 dimerization interface [polypeptide binding]; other site 409026002144 Protein of unknown function (DUF3083); Region: DUF3083; pfam11281 409026002145 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026002146 Helix-turn-helix domains; Region: HTH; cl00088 409026002147 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 409026002148 dimerization interface [polypeptide binding]; other site 409026002149 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 409026002150 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 409026002151 tetramerization interface [polypeptide binding]; other site 409026002152 NAD(P) binding site [chemical binding]; other site 409026002153 catalytic residues [active] 409026002154 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 409026002155 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 409026002156 inhibitor-cofactor binding pocket; inhibition site 409026002157 pyridoxal 5'-phosphate binding site [chemical binding]; other site 409026002158 catalytic residue [active] 409026002159 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 409026002160 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 409026002161 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 409026002162 active site 409026002163 FMN binding site [chemical binding]; other site 409026002164 substrate binding site [chemical binding]; other site 409026002165 3Fe-4S cluster binding site [ion binding]; other site 409026002166 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 409026002167 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 409026002168 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 409026002169 catalytic residue [active] 409026002170 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 409026002171 FMN binding site [chemical binding]; other site 409026002172 active site 409026002173 substrate binding site [chemical binding]; other site 409026002174 catalytic residue [active] 409026002175 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 409026002176 Helix-turn-helix domains; Region: HTH; cl00088 409026002177 PII uridylyl-transferase; Provisional; Region: PRK05007 409026002178 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 409026002179 metal binding triad; other site 409026002180 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 409026002181 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 409026002182 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 409026002183 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 409026002184 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 409026002185 active site 409026002186 tetramer interface [polypeptide binding]; other site 409026002187 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 409026002188 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 409026002189 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 409026002190 Helix-turn-helix domains; Region: HTH; cl00088 409026002191 Ribosome recycling factor; Region: RRF_GI; pfam12614 409026002192 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 409026002193 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 409026002194 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026002195 Helix-turn-helix domains; Region: HTH; cl00088 409026002196 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 409026002197 dimerization interface [polypeptide binding]; other site 409026002198 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 409026002199 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026002200 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026002201 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 409026002202 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 409026002203 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 409026002204 substrate binding pocket [chemical binding]; other site 409026002205 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 409026002206 B12 binding site [chemical binding]; other site 409026002207 cobalt ligand [ion binding]; other site 409026002208 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 409026002209 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 409026002210 catalytic core [active] 409026002211 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 409026002212 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 409026002213 Walker A/P-loop; other site 409026002214 ATP binding site [chemical binding]; other site 409026002215 Q-loop/lid; other site 409026002216 ABC transporter signature motif; other site 409026002217 Walker B; other site 409026002218 D-loop; other site 409026002219 H-loop/switch region; other site 409026002220 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 409026002221 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 409026002222 ABC-ATPase subunit interface; other site 409026002223 dimer interface [polypeptide binding]; other site 409026002224 putative PBP binding regions; other site 409026002225 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 409026002226 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 409026002227 putative dimer interface [polypeptide binding]; other site 409026002228 active site pocket [active] 409026002229 putative cataytic base [active] 409026002230 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 409026002231 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 409026002232 homotrimer interface [polypeptide binding]; other site 409026002233 Walker A motif; other site 409026002234 GTP binding site [chemical binding]; other site 409026002235 Walker B motif; other site 409026002236 cobyric acid synthase; Provisional; Region: PRK00784 409026002237 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026002238 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026002239 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 409026002240 catalytic triad [active] 409026002241 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026002242 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 409026002243 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 homodimer; Region: CobA_CobO_BtuR; cd00561 409026002244 homodimer interface [polypeptide binding]; other site 409026002245 Walker A motif; other site 409026002246 ATP binding site [chemical binding]; other site 409026002247 hydroxycobalamin binding site [chemical binding]; other site 409026002248 Walker B motif; other site 409026002249 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; cl07370 409026002250 PCI domain; Region: PCI; cl02111 409026002251 Integrase core domain; Region: rve; cl01316 409026002252 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026002253 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 409026002254 ATP binding site [chemical binding]; other site 409026002255 putative Mg++ binding site [ion binding]; other site 409026002256 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026002257 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 409026002258 non-specific DNA binding site [nucleotide binding]; other site 409026002259 salt bridge; other site 409026002260 sequence-specific DNA binding site [nucleotide binding]; other site 409026002261 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 409026002262 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 409026002263 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 409026002264 active site 409026002265 metal binding site [ion binding]; metal-binding site 409026002266 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 409026002267 TniQ; Region: TniQ; pfam06527 409026002268 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cl12127 409026002269 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cl09832 409026002270 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cl09835 409026002271 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 409026002272 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine'...; Region: Peptidase_C39_likeA; cd02417 409026002273 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 409026002274 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 409026002275 The ABC-transporter hemolysin B is a central component of the secretion machinery that translocates the toxin, hemolysin A, in a Sec-independent fashion across both membranes of E. coli. The hemolysin A (HlyA) transport machinery is composed of the...; Region: ABCC_Hemolysin; cd03252 409026002276 Walker A/P-loop; other site 409026002277 ATP binding site [chemical binding]; other site 409026002278 Q-loop/lid; other site 409026002279 ABC transporter signature motif; other site 409026002280 Walker B; other site 409026002281 D-loop; other site 409026002282 H-loop/switch region; other site 409026002283 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 409026002284 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 409026002285 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 409026002286 Domain of unknown function (DUF4329); Region: DUF4329; pfam14220 409026002287 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 409026002288 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 409026002289 cobalamin binding residues [chemical binding]; other site 409026002290 putative BtuC binding residues; other site 409026002291 dimer interface [polypeptide binding]; other site 409026002292 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 409026002293 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 409026002294 putative substrate translocation pore; other site 409026002295 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 409026002296 classical (c) SDRs; Region: SDR_c; cd05233 409026002297 NAD(P) binding site [chemical binding]; other site 409026002298 active site 409026002299 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 409026002300 putative effector binding pocket; other site 409026002301 dimerization interface [polypeptide binding]; other site 409026002302 MAPEG family; Region: MAPEG; cl09190 409026002303 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 409026002304 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39C; cd02419 409026002305 putative active site [active] 409026002306 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 409026002307 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026002308 Walker A/P-loop; other site 409026002309 ATP binding site [chemical binding]; other site 409026002310 Q-loop/lid; other site 409026002311 ABC transporter signature motif; other site 409026002312 Walker B; other site 409026002313 D-loop; other site 409026002314 H-loop/switch region; other site 409026002315 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 409026002316 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 409026002317 FeS/SAM binding site; other site 409026002318 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; cl14869 409026002319 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 409026002320 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 409026002321 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 409026002322 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 409026002323 Walker A/P-loop; other site 409026002324 ATP binding site [chemical binding]; other site 409026002325 Q-loop/lid; other site 409026002326 ABC transporter signature motif; other site 409026002327 Walker B; other site 409026002328 D-loop; other site 409026002329 H-loop/switch region; other site 409026002330 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 409026002331 FtsX-like permease family; Region: FtsX; pfam02687 409026002332 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 409026002333 FtsX-like permease family; Region: FtsX; pfam02687 409026002334 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 409026002335 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 409026002336 active site 409026002337 phosphorylation site [posttranslational modification] 409026002338 intermolecular recognition site; other site 409026002339 dimerization interface [polypeptide binding]; other site 409026002340 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026002341 Walker A motif; other site 409026002342 ATP binding site [chemical binding]; other site 409026002343 Walker B motif; other site 409026002344 arginine finger; other site 409026002345 Helix-turn-helix domains; Region: HTH; cl00088 409026002346 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 409026002347 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 409026002348 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 409026002349 ATP binding site [chemical binding]; other site 409026002350 Mg2+ binding site [ion binding]; other site 409026002351 G-X-G motif; other site 409026002352 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 409026002353 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 409026002354 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 409026002355 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 409026002356 Helix-turn-helix domains; Region: HTH; cl00088 409026002357 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 409026002358 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 409026002359 NAD(P) binding site [chemical binding]; other site 409026002360 catalytic residues [active] 409026002361 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 409026002362 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 409026002363 Ligand Binding Site [chemical binding]; other site 409026002364 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 409026002365 Ligand Binding Site [chemical binding]; other site 409026002366 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 409026002367 Predicted membrane protein [Function unknown]; Region: COG3428 409026002368 Bacterial membrane flanked domain; Region: DUF304; cl01348 409026002369 Bacterial membrane flanked domain; Region: DUF304; cl01348 409026002370 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 409026002371 Bacterial membrane flanked domain; Region: DUF304; cl01348 409026002372 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; cl11547 409026002373 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 409026002374 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 409026002375 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 409026002376 conserved cys residue [active] 409026002377 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 409026002378 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 409026002379 Ion transport protein; Region: Ion_trans; pfam00520 409026002380 Polycystin cation channel; Region: PKD_channel; pfam08016 409026002381 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 409026002382 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 409026002383 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 409026002384 active site 409026002385 phosphorylation site [posttranslational modification] 409026002386 intermolecular recognition site; other site 409026002387 dimerization interface [polypeptide binding]; other site 409026002388 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 409026002389 DNA binding site [nucleotide binding] 409026002390 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 409026002391 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 409026002392 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 409026002393 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 409026002394 ATP binding site [chemical binding]; other site 409026002395 Mg2+ binding site [ion binding]; other site 409026002396 G-X-G motif; other site 409026002397 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 409026002398 active site 409026002399 phosphorylation site [posttranslational modification] 409026002400 intermolecular recognition site; other site 409026002401 dimerization interface [polypeptide binding]; other site 409026002402 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 409026002403 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 409026002404 active site 409026002405 metal binding site [ion binding]; metal-binding site 409026002406 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 409026002407 DNA-binding site [nucleotide binding]; DNA binding site 409026002408 RNA-binding motif; other site 409026002409 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 409026002410 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 409026002411 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 409026002412 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 409026002413 iron binding site [ion binding]; other site 409026002414 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 409026002415 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026002416 EamA-like transporter family; Region: EamA; cl01037 409026002417 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 409026002418 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 409026002419 FMN binding site [chemical binding]; other site 409026002420 active site 409026002421 substrate binding site [chemical binding]; other site 409026002422 catalytic residue [active] 409026002423 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 409026002424 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 409026002425 dimer interface [polypeptide binding]; other site 409026002426 active site 409026002427 metal binding site [ion binding]; metal-binding site 409026002428 glutathione binding site [chemical binding]; other site 409026002429 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026002430 NAD(P) binding site [chemical binding]; other site 409026002431 active site 409026002432 Response regulator receiver domain; Region: Response_reg; pfam00072 409026002433 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 409026002434 active site 409026002435 phosphorylation site [posttranslational modification] 409026002436 intermolecular recognition site; other site 409026002437 dimerization interface [polypeptide binding]; other site 409026002438 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 409026002439 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 409026002440 dimer interface [polypeptide binding]; other site 409026002441 phosphorylation site [posttranslational modification] 409026002442 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 409026002443 ATP binding site [chemical binding]; other site 409026002444 Mg2+ binding site [ion binding]; other site 409026002445 G-X-G motif; other site 409026002446 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 409026002447 active site 409026002448 phosphorylation site [posttranslational modification] 409026002449 intermolecular recognition site; other site 409026002450 dimerization interface [polypeptide binding]; other site 409026002451 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 409026002452 N-terminal domain interface [polypeptide binding]; other site 409026002453 dimer interface [polypeptide binding]; other site 409026002454 active site 409026002455 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 409026002456 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 409026002457 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 409026002458 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 409026002459 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 409026002460 active site 409026002461 Zn binding site [ion binding]; other site 409026002462 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 409026002463 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 409026002464 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 409026002465 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 409026002466 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 409026002467 dimer interface [polypeptide binding]; other site 409026002468 FMN binding site [chemical binding]; other site 409026002469 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 409026002470 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 409026002471 Protein of unknown function (DUF465); Region: DUF465; cl01070 409026002472 Carbon starvation protein CstA; Region: CstA; cl00856 409026002473 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 409026002474 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 409026002475 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 409026002476 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 409026002477 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 409026002478 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 409026002479 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 409026002480 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 409026002481 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 409026002482 DNA binding residues [nucleotide binding] 409026002483 DNA primase; Validated; Region: dnaG; PRK05667 409026002484 CHC2 zinc finger; Region: zf-CHC2; cl15369 409026002485 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 409026002486 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 409026002487 active site 409026002488 metal binding site [ion binding]; metal-binding site 409026002489 interdomain interaction site; other site 409026002490 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 409026002491 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 409026002492 GatB domain; Region: GatB_Yqey; cl11497 409026002493 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 409026002494 UGMP family protein; Validated; Region: PRK09604 409026002495 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 409026002496 Domain of unknown function (DUF205); Region: DUF205; cl00410 409026002497 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 409026002498 homooctamer interface [polypeptide binding]; other site 409026002499 active site 409026002500 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 409026002501 catalytic center binding site [active] 409026002502 ATP binding site [chemical binding]; other site 409026002503 Bacitracin resistance protein BacA; Region: BacA; cl00858 409026002504 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 409026002505 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 409026002506 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; cd00118 409026002507 putative peptidoglycan binding site; other site 409026002508 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 409026002509 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238; cl11539 409026002510 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 409026002511 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 409026002512 active site 409026002513 NTP binding site [chemical binding]; other site 409026002514 metal binding triad [ion binding]; metal-binding site 409026002515 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 409026002516 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 409026002517 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 409026002518 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026002519 Walker A motif; other site 409026002520 ATP binding site [chemical binding]; other site 409026002521 Walker B motif; other site 409026002522 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 409026002523 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; cl15357 409026002524 transmembrane helices; other site 409026002525 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 409026002526 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 409026002527 inhibitor-cofactor binding pocket; inhibition site 409026002528 pyridoxal 5'-phosphate binding site [chemical binding]; other site 409026002529 catalytic residue [active] 409026002530 aspartate carbamoyltransferase; Provisional; Region: PRK08192 409026002531 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 409026002532 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026002533 ApbE family; Region: ApbE; cl00643 409026002534 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 409026002535 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 409026002536 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 409026002537 N-terminal plug; other site 409026002538 ligand-binding site [chemical binding]; other site 409026002539 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 409026002540 active site 409026002541 catalytic triad [active] 409026002542 oxyanion hole [active] 409026002543 switch loop; other site 409026002544 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 409026002545 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026002546 Helix-turn-helix domains; Region: HTH; cl00088 409026002547 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 409026002548 putative dimerization interface [polypeptide binding]; other site 409026002549 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 409026002550 hypothetical protein; Provisional; Region: PRK10941 409026002551 Protein of unknown function (DUF819); Region: DUF819; cl02317 409026002552 NeuB family; Region: NeuB; cl00496 409026002553 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 409026002554 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 409026002555 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 409026002556 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 409026002557 active site 409026002558 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 409026002559 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026002560 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 409026002561 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 409026002562 VanZ like family; Region: VanZ; cl01971 409026002563 Protein of unknown function (DUF520); Region: DUF520; cl00723 409026002564 AmpG-related permease; Region: 2A0125; TIGR00901 409026002565 muropeptide transporter; Validated; Region: ampG; PRK11010 409026002566 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 409026002567 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 409026002568 substrate binding site [chemical binding]; other site 409026002569 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG3056 409026002570 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 409026002571 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 409026002572 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 409026002573 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 409026002574 Helix-turn-helix domains; Region: HTH; cl00088 409026002575 DNA binding site [nucleotide binding] 409026002576 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 409026002577 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 409026002578 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 409026002579 S-adenosylmethionine binding site [chemical binding]; other site 409026002580 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 409026002581 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 409026002582 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 409026002583 BolA-like protein; Region: BolA; cl00386 409026002584 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 409026002585 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 409026002586 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 409026002587 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 409026002588 FMN-binding domain; Region: FMN_bind; cl01081 409026002589 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 409026002590 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 409026002591 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 409026002592 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 409026002593 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 409026002594 catalytic loop [active] 409026002595 iron binding site [ion binding]; other site 409026002596 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 409026002597 FAD binding pocket [chemical binding]; other site 409026002598 FAD binding motif [chemical binding]; other site 409026002599 phosphate binding motif [ion binding]; other site 409026002600 beta-alpha-beta structure motif; other site 409026002601 NAD binding pocket [chemical binding]; other site 409026002602 ApbE family; Region: ApbE; cl00643 409026002603 Protein of unknown function (DUF539); Region: DUF539; cl01129 409026002604 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 409026002605 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 409026002606 heme binding site [chemical binding]; other site 409026002607 ferroxidase pore; other site 409026002608 ferroxidase diiron center [ion binding]; other site 409026002609 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 409026002610 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 409026002611 heme binding site [chemical binding]; other site 409026002612 ferroxidase pore; other site 409026002613 ferroxidase diiron center [ion binding]; other site 409026002614 Cache domain; Region: Cache_1; pfam02743 409026002615 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 409026002616 dimerization interface [polypeptide binding]; other site 409026002617 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 409026002618 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 409026002619 DNA polymerase IV; Validated; Region: PRK02406 409026002620 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 409026002621 DNA binding site [nucleotide binding] 409026002622 active site 409026002623 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 409026002624 metal binding site [ion binding]; metal-binding site 409026002625 dimer interface [polypeptide binding]; other site 409026002626 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 409026002627 multifunctional aminopeptidase A; Provisional; Region: PRK00913 409026002628 interface (dimer of trimers) [polypeptide binding]; other site 409026002629 Substrate-binding/catalytic site; other site 409026002630 Zn-binding sites [ion binding]; other site 409026002631 SUKH-4 immunity protein; Region: SUKH-4; pfam14435 409026002632 Domain of unknown function (DUF4265); Region: DUF4265; pfam14085 409026002633 SMI1 / KNR4 family; Region: SMI1_KNR4; cl01747 409026002634 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 409026002635 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 409026002636 putative active site [active] 409026002637 putative NTP binding site [chemical binding]; other site 409026002638 putative nucleic acid binding site [nucleotide binding]; other site 409026002639 Permease family; Region: Xan_ur_permease; cl00967 409026002640 gamma-glutamyl kinase; Provisional; Region: PRK05429 409026002641 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 409026002642 homotetrameric interface [polypeptide binding]; other site 409026002643 putative phosphate binding site [ion binding]; other site 409026002644 putative allosteric binding site; other site 409026002645 nucleotide binding site [chemical binding]; other site 409026002646 PUA domain; Region: PUA; cl00607 409026002647 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 409026002648 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 409026002649 putative catalytic cysteine [active] 409026002650 EamA-like transporter family; Region: EamA; cl01037 409026002651 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 409026002652 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 409026002653 chaperone protein DnaJ; Provisional; Region: PRK10767 409026002654 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 409026002655 HSP70 interaction site [polypeptide binding]; other site 409026002656 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 409026002657 substrate binding site [polypeptide binding]; other site 409026002658 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 409026002659 Zn binding sites [ion binding]; other site 409026002660 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 409026002661 dimer interface [polypeptide binding]; other site 409026002662 Peptidase family M48; Region: Peptidase_M48; cl12018 409026002663 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 409026002664 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 409026002665 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 409026002666 dihydrodipicolinate reductase; Provisional; Region: PRK00048 409026002667 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026002668 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 409026002669 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 409026002670 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 409026002671 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 409026002672 catalytic site [active] 409026002673 subunit interface [polypeptide binding]; other site 409026002674 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 409026002675 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 409026002676 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 409026002677 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 409026002678 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 409026002679 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 409026002680 IMP binding site; other site 409026002681 dimer interface [polypeptide binding]; other site 409026002682 interdomain contacts; other site 409026002683 partial ornithine binding site; other site 409026002684 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 409026002685 domain; Region: GreA_GreB_N; pfam03449 409026002686 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 409026002687 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK12933 409026002688 Protein export membrane protein; Region: SecD_SecF; cl14618 409026002689 protein-export membrane protein SecF; Region: 3a0501s07; TIGR00966 409026002690 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 409026002691 Protein export membrane protein; Region: SecD_SecF; cl14618 409026002692 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 409026002693 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 409026002694 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 409026002695 S-adenosylmethionine binding site [chemical binding]; other site 409026002696 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 409026002697 FtsH Extracellular; Region: FtsH_ext; pfam06480 409026002698 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026002699 Walker A motif; other site 409026002700 ATP binding site [chemical binding]; other site 409026002701 Walker B motif; other site 409026002702 arginine finger; other site 409026002703 Peptidase family M41; Region: Peptidase_M41; pfam01434 409026002704 dihydropteroate synthase; Region: DHPS; TIGR01496 409026002705 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 409026002706 substrate binding pocket [chemical binding]; other site 409026002707 dimer interface [polypeptide binding]; other site 409026002708 inhibitor binding site; inhibition site 409026002709 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 409026002710 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 409026002711 active site 409026002712 substrate binding site [chemical binding]; other site 409026002713 metal binding site [ion binding]; metal-binding site 409026002714 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 409026002715 substrate binding site [chemical binding]; other site 409026002716 dimer interface [polypeptide binding]; other site 409026002717 catalytic triad [active] 409026002718 Preprotein translocase SecG subunit; Region: SecG; cl09123 409026002719 ribosome maturation protein RimP; Reviewed; Region: PRK00092 409026002720 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 of...; Region: Sm_like; cl00259 409026002721 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 of...; Region: Sm_like; cl00259 409026002722 Sm1 motif; other site 409026002723 D3 - B interaction site; other site 409026002724 D1 - D2 interaction site; other site 409026002725 Hfq - Hfq interaction site; other site 409026002726 RNA binding pocket [nucleotide binding]; other site 409026002727 Sm2 motif; other site 409026002728 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 409026002729 NusA N-terminal domain; Region: NusA_N; pfam08529 409026002730 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 409026002731 RNA binding site [nucleotide binding]; other site 409026002732 homodimer interface [polypeptide binding]; other site 409026002733 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 409026002734 G-X-X-G motif; other site 409026002735 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 409026002736 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 409026002737 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 409026002738 translation initiation factor IF-2; Region: IF-2; TIGR00487 409026002739 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 409026002740 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 409026002741 G1 box; other site 409026002742 putative GEF interaction site [polypeptide binding]; other site 409026002743 GTP/Mg2+ binding site [chemical binding]; other site 409026002744 Switch I region; other site 409026002745 G2 box; other site 409026002746 G3 box; other site 409026002747 Switch II region; other site 409026002748 G4 box; other site 409026002749 G5 box; other site 409026002750 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 409026002751 Translation-initiation factor 2; Region: IF-2; pfam11987 409026002752 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 409026002753 Ribosome-binding factor A; Region: RBFA; cl00542 409026002754 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 409026002755 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 specific...; Region: PseudoU_synth_EcTruB; cd02573 409026002756 RNA binding site [nucleotide binding]; other site 409026002757 active site 409026002758 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 409026002759 16S/18S rRNA binding site [nucleotide binding]; other site 409026002760 S13e-L30e interaction site [polypeptide binding]; other site 409026002761 25S rRNA binding site [nucleotide binding]; other site 409026002762 biofilm formation regulator HmsP; Provisional; Region: PRK11829 409026002763 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026002764 metal binding site [ion binding]; metal-binding site 409026002765 active site 409026002766 I-site; other site 409026002767 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 409026002768 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 409026002769 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 409026002770 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 409026002771 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 409026002772 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 409026002773 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 409026002774 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 409026002775 putative nucleic acid binding region [nucleotide binding]; other site 409026002776 G-X-X-G motif; other site 409026002777 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 409026002778 RNA binding site [nucleotide binding]; other site 409026002779 domain interface; other site 409026002780 lipoprotein NlpI; Provisional; Region: PRK11189 409026002781 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 409026002782 binding surface 409026002783 TPR motif; other site 409026002784 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 409026002785 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 409026002786 G1 box; other site 409026002787 putative GEF interaction site [polypeptide binding]; other site 409026002788 GTP/Mg2+ binding site [chemical binding]; other site 409026002789 Switch I region; other site 409026002790 G2 box; other site 409026002791 G3 box; other site 409026002792 Switch II region; other site 409026002793 G4 box; other site 409026002794 G5 box; other site 409026002795 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 409026002796 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 409026002797 active site 409026002798 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 409026002799 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 409026002800 Nucleoside recognition; Region: Gate; cl00486 409026002801 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 409026002802 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 409026002803 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 409026002804 intersubunit interface [polypeptide binding]; other site 409026002805 active site 409026002806 catalytic residue [active] 409026002807 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 409026002808 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 409026002809 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 409026002810 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 409026002811 Sulfatase; Region: Sulfatase; cl10460 409026002812 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 409026002813 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 409026002814 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 409026002815 phosphoserine phosphatase SerB; Region: serB; TIGR00338 409026002816 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 409026002817 motif II; other site 409026002818 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 409026002819 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 409026002820 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 409026002821 active site 409026002822 phosphorylation site [posttranslational modification] 409026002823 intermolecular recognition site; other site 409026002824 dimerization interface [polypeptide binding]; other site 409026002825 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 409026002826 DNA binding residues [nucleotide binding] 409026002827 dimerization interface [polypeptide binding]; other site 409026002828 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 409026002829 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 409026002830 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 409026002831 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 409026002832 dimer interface [polypeptide binding]; other site 409026002833 phosphorylation site [posttranslational modification] 409026002834 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 409026002835 ATP binding site [chemical binding]; other site 409026002836 Mg2+ binding site [ion binding]; other site 409026002837 G-X-G motif; other site 409026002838 thiosulfate reductase PhsA; Provisional; Region: PRK15488 409026002839 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 409026002840 putative [Fe4-S4] binding site [ion binding]; other site 409026002841 putative molybdopterin cofactor binding site [chemical binding]; other site 409026002842 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 409026002843 putative molybdopterin cofactor binding site; other site 409026002844 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 409026002845 Polysulphide reductase, NrfD; Region: NrfD; cl01295 409026002846 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 409026002847 PilZ domain; Region: PilZ; cl01260 409026002848 PilZ domain; Region: PilZ; cl01260 409026002849 DNA repair protein RadA; Provisional; Region: PRK11823 409026002850 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026002851 Walker A motif; other site 409026002852 ATP binding site [chemical binding]; other site 409026002853 Walker B motif; other site 409026002854 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 409026002855 PilZ domain; Region: PilZ; cl01260 409026002856 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 409026002857 Surface antigen; Region: Bac_surface_Ag; cl03097 409026002858 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 409026002859 DEAD-like helicases superfamily; Region: DEXDc; smart00487 409026002860 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 409026002861 ATP binding site [chemical binding]; other site 409026002862 Mg++ binding site [ion binding]; other site 409026002863 motif III; other site 409026002864 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 409026002865 nucleotide binding region [chemical binding]; other site 409026002866 ATP-binding site [chemical binding]; other site 409026002867 Surface antigen; Region: Bac_surface_Ag; cl03097 409026002868 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026002869 Helix-turn-helix domains; Region: HTH; cl00088 409026002870 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 409026002871 dimerization interface [polypeptide binding]; other site 409026002872 Permease family; Region: Xan_ur_permease; cl00967 409026002873 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 409026002874 putative acyl-acceptor binding pocket; other site 409026002875 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 409026002876 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 409026002877 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 409026002878 putative active site [active] 409026002879 putative metal binding site [ion binding]; other site 409026002880 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 409026002881 Nucleoside recognition; Region: Gate; cl00486 409026002882 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 409026002883 PAS fold; Region: PAS_3; pfam08447 409026002884 putative active site [active] 409026002885 heme pocket [chemical binding]; other site 409026002886 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 409026002887 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 409026002888 Peptidase family U32; Region: Peptidase_U32; cl03113 409026002889 Peptidase family U32; Region: Peptidase_U32; cl03113 409026002890 SCP-2 sterol transfer family; Region: SCP2; cl01225 409026002891 Putative exonuclease, RdgC; Region: RdgC; cl01122 409026002892 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 409026002893 trimer interface [polypeptide binding]; other site 409026002894 eyelet of channel; other site 409026002895 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 409026002896 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 409026002897 active site 409026002898 phosphorylation site [posttranslational modification] 409026002899 intermolecular recognition site; other site 409026002900 dimerization interface [polypeptide binding]; other site 409026002901 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 409026002902 DNA binding site [nucleotide binding] 409026002903 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 409026002904 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 409026002905 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 409026002906 putative active site [active] 409026002907 heme pocket [chemical binding]; other site 409026002908 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 409026002909 dimer interface [polypeptide binding]; other site 409026002910 phosphorylation site [posttranslational modification] 409026002911 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 409026002912 ATP binding site [chemical binding]; other site 409026002913 Mg2+ binding site [ion binding]; other site 409026002914 G-X-G motif; other site 409026002915 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 409026002916 Collagenase; Region: Peptidase_M9; pfam01752 409026002917 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 409026002918 Peptidase M1 family contains leukotriene A4 hydrolase; Region: M1_LTA4H; cd09599 409026002919 active site 409026002920 Zn binding site [ion binding]; other site 409026002921 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 409026002922 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 409026002923 catalytic residues [active] 409026002924 dimer interface [polypeptide binding]; other site 409026002925 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 409026002926 YfaZ precursor; Region: YfaZ; pfam07437 409026002927 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 409026002928 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 409026002929 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026002930 metal binding site [ion binding]; metal-binding site 409026002931 active site 409026002932 I-site; other site 409026002933 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 409026002934 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 409026002935 vitamin B12/cobalamin outer membrane transporter; Provisional; Region: btuB; PRK10641 409026002936 Conserved hypothetical protein (DUF2461); Region: DUF2461; cl02374 409026002937 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 409026002938 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 409026002939 ligand binding site [chemical binding]; other site 409026002940 mechanosensitive channel MscS; Provisional; Region: PRK10334 409026002941 Mechanosensitive ion channel; Region: MS_channel; pfam00924 409026002942 Predicted membrane protein [Function unknown]; Region: COG2860 409026002943 UPF0126 domain; Region: UPF0126; pfam03458 409026002944 UPF0126 domain; Region: UPF0126; pfam03458 409026002945 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 409026002946 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 409026002947 tetramer interface [polypeptide binding]; other site 409026002948 pyridoxal 5'-phosphate binding site [chemical binding]; other site 409026002949 catalytic residue [active] 409026002950 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 409026002951 dimer interface [polypeptide binding]; other site 409026002952 Alkaline phosphatase homologues; Region: alkPPc; smart00098 409026002953 active site 409026002954 Alkaline phosphatase homologues; Region: alkPPc; smart00098 409026002955 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 409026002956 active site 409026002957 dimer interface [polypeptide binding]; other site 409026002958 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 409026002959 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 409026002960 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026002961 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 409026002962 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 409026002963 Protein export membrane protein; Region: SecD_SecF; cl14618 409026002964 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 409026002965 putative DNA binding site [nucleotide binding]; other site 409026002966 putative Zn2+ binding site [ion binding]; other site 409026002967 Transposase; Region: DEDD_Tnp_IS110; pfam01548 409026002968 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_6; cd06154 409026002969 homotrimer interaction site [polypeptide binding]; other site 409026002970 putative active site [active] 409026002971 Domain of unknown function (DUF4336); Region: DUF4336; pfam14234 409026002972 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 409026002973 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 409026002974 dimer interface [polypeptide binding]; other site 409026002975 active site 409026002976 metal binding site [ion binding]; metal-binding site 409026002977 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 409026002978 glycogen branching enzyme; Provisional; Region: PRK05402 409026002979 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 409026002980 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 409026002981 active site 409026002982 catalytic site [active] 409026002983 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 409026002984 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 409026002985 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 409026002986 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 409026002987 active site 409026002988 catalytic site [active] 409026002989 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 409026002990 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 409026002991 active site pocket [active] 409026002992 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 409026002993 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 409026002994 ligand binding site; other site 409026002995 oligomer interface; other site 409026002996 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 409026002997 dimer interface [polypeptide binding]; other site 409026002998 N-terminal domain interface [polypeptide binding]; other site 409026002999 sulfate 1 binding site; other site 409026003000 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 409026003001 glycogen synthase; Provisional; Region: glgA; PRK00654 409026003002 ADP-binding pocket [chemical binding]; other site 409026003003 homodimer interface [polypeptide binding]; other site 409026003004 LabA_like proteins; Region: LabA; cd10911 409026003005 putative metal binding site [ion binding]; other site 409026003006 MAPEG family; Region: MAPEG; cl09190 409026003007 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 409026003008 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 409026003009 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 409026003010 active site 409026003011 metal binding site [ion binding]; metal-binding site 409026003012 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 409026003013 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 409026003014 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 409026003015 Shewanella-like phosphatases, metallophosphatase domain; Region: MPP_Shelphs; cd07425 409026003016 active site 409026003017 metal binding site [ion binding]; metal-binding site 409026003018 Acyltransferase family; Region: Acyl_transf_3; pfam01757 409026003019 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 409026003020 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026003021 Walker A/P-loop; other site 409026003022 ATP binding site [chemical binding]; other site 409026003023 Q-loop/lid; other site 409026003024 ABC transporter signature motif; other site 409026003025 Walker B; other site 409026003026 D-loop; other site 409026003027 H-loop/switch region; other site 409026003028 ABC transporter; Region: ABC_tran_2; pfam12848 409026003029 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 facilitated...; Region: ABCF_EF-3; cd03221 409026003030 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 409026003031 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 409026003032 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 409026003033 dimer interface [polypeptide binding]; other site 409026003034 glycine-pyridoxal phosphate binding site [chemical binding]; other site 409026003035 active site 409026003036 folate binding site [chemical binding]; other site 409026003037 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 409026003038 ATP cone domain; Region: ATP-cone; pfam03477 409026003039 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 409026003040 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 409026003041 catalytic motif [active] 409026003042 Zn binding site [ion binding]; other site 409026003043 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 409026003044 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 409026003045 Lumazine binding domain; Region: Lum_binding; pfam00677 409026003046 Lumazine binding domain; Region: Lum_binding; pfam00677 409026003047 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 409026003048 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 409026003049 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; cl00522 409026003050 dimerization interface [polypeptide binding]; other site 409026003051 active site 409026003052 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 409026003053 homopentamer interface [polypeptide binding]; other site 409026003054 active site 409026003055 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 409026003056 putative RNA binding site [nucleotide binding]; other site 409026003057 thiamine monophosphate kinase; Provisional; Region: PRK05731 409026003058 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 409026003059 ATP binding site [chemical binding]; other site 409026003060 dimerization interface [polypeptide binding]; other site 409026003061 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 409026003062 tetramer interfaces [polypeptide binding]; other site 409026003063 binuclear metal-binding site [ion binding]; other site 409026003064 recombination and repair protein; Provisional; Region: PRK10869 409026003065 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, and...; Region: ABC_RecN; cd03241 409026003066 Walker A/P-loop; other site 409026003067 ATP binding site [chemical binding]; other site 409026003068 Q-loop/lid; other site 409026003069 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, and...; Region: ABC_RecN; cd03241 409026003070 ABC transporter signature motif; other site 409026003071 Walker B; other site 409026003072 D-loop; other site 409026003073 H-loop/switch region; other site 409026003074 Membrane transport protein; Region: Mem_trans; cl09117 409026003075 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026003076 Helix-turn-helix domains; Region: HTH; cl00088 409026003077 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 409026003078 putative effector binding pocket; other site 409026003079 dimerization interface [polypeptide binding]; other site 409026003080 Protein of unknown function (DUF416); Region: DUF416; cl01166 409026003081 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 409026003082 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 409026003083 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 409026003084 dimerization interface [polypeptide binding]; other site 409026003085 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 409026003086 dimer interface [polypeptide binding]; other site 409026003087 phosphorylation site [posttranslational modification] 409026003088 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 409026003089 ATP binding site [chemical binding]; other site 409026003090 Mg2+ binding site [ion binding]; other site 409026003091 G-X-G motif; other site 409026003092 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 409026003093 active site 409026003094 phosphorylation site [posttranslational modification] 409026003095 intermolecular recognition site; other site 409026003096 dimerization interface [polypeptide binding]; other site 409026003097 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 409026003098 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 409026003099 TRAM domain; Region: TRAM; cl01282 409026003100 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 409026003101 S-adenosylmethionine binding site [chemical binding]; other site 409026003102 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 409026003103 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 409026003104 synthetase active site [active] 409026003105 NTP binding site [chemical binding]; other site 409026003106 metal binding site [ion binding]; metal-binding site 409026003107 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 409026003108 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 409026003109 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 409026003110 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 409026003111 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 409026003112 CTP synthetase; Validated; Region: pyrG; PRK05380 409026003113 UTP binding site [chemical binding]; other site 409026003114 active site 409026003115 Catalytic site [active] 409026003116 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 409026003117 active site 409026003118 putative oxyanion hole; other site 409026003119 catalytic triad [active] 409026003120 enolase; Provisional; Region: eno; PRK00077 409026003121 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 409026003122 dimer interface [polypeptide binding]; other site 409026003123 metal binding site [ion binding]; metal-binding site 409026003124 substrate binding pocket [chemical binding]; other site 409026003125 Septum formation initiator; Region: DivIC; cl11433 409026003126 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 409026003127 substrate binding site; other site 409026003128 dimer interface; other site 409026003129 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 409026003130 homotrimer interaction site [polypeptide binding]; other site 409026003131 zinc binding site [ion binding]; other site 409026003132 CDP-binding sites; other site 409026003133 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 409026003134 PseudoU_synth_EcTruD: Pseudouridine synthase, TruD family. This group consists of bacterial pseudouridine synthases similar to Escherichia coli TruD. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_EcTruD; cd02575 409026003135 Permutation of conserved domain; other site 409026003136 active site 409026003137 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 409026003138 Survival protein SurE; Region: SurE; cl00448 409026003139 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 409026003140 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 409026003141 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 409026003142 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; cd00118 409026003143 putative peptidoglycan binding site; other site 409026003144 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 409026003145 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 409026003146 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 409026003147 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 409026003148 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 409026003149 DNA binding residues [nucleotide binding] 409026003150 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 409026003151 MutS domain I; Region: MutS_I; pfam01624 409026003152 MutS domain II; Region: MutS_II; pfam05188 409026003153 MutS family domain IV; Region: MutS_IV; pfam05190 409026003154 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 409026003155 Walker A/P-loop; other site 409026003156 ATP binding site [chemical binding]; other site 409026003157 Q-loop/lid; other site 409026003158 ABC transporter signature motif; other site 409026003159 Walker B; other site 409026003160 D-loop; other site 409026003161 H-loop/switch region; other site 409026003162 recombinase A; Provisional; Region: recA; PRK09354 409026003163 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 409026003164 hexamer interface [polypeptide binding]; other site 409026003165 Walker A motif; other site 409026003166 ATP binding site [chemical binding]; other site 409026003167 Walker B motif; other site 409026003168 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 409026003169 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 of...; Region: AlaRS_core; cd00673 409026003170 motif 1; other site 409026003171 active site 409026003172 motif 2; other site 409026003173 motif 3; other site 409026003174 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 409026003175 DHHA1 domain; Region: DHHA1; pfam02272 409026003176 Global regulator protein family; Region: CsrA; cl00670 409026003177 Sulfatase; Region: Sulfatase; cl10460 409026003178 MoxR-like ATPases [General function prediction only]; Region: COG0714 409026003179 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026003180 Walker A motif; other site 409026003181 ATP binding site [chemical binding]; other site 409026003182 Walker B motif; other site 409026003183 arginine finger; other site 409026003184 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026003185 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 409026003186 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 409026003187 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 409026003188 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 409026003189 metal ion-dependent adhesion site (MIDAS); other site 409026003190 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 409026003191 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 409026003192 TPR motif; other site 409026003193 binding surface 409026003194 Oxygen tolerance; Region: BatD; pfam13584 409026003195 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; cl01458 409026003196 oxaloacetate decarboxylase; Provisional; Region: PRK14040 409026003197 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 409026003198 active site 409026003199 catalytic residues [active] 409026003200 metal binding site [ion binding]; metal-binding site 409026003201 homodimer binding site [polypeptide binding]; other site 409026003202 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 409026003203 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 409026003204 carboxyltransferase (CT) interaction site; other site 409026003205 biotinylation site [posttranslational modification]; other site 409026003206 subunit; Region: OAD_beta; cl00816 409026003207 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 409026003208 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026003209 Walker A/P-loop; other site 409026003210 ATP binding site [chemical binding]; other site 409026003211 Q-loop/lid; other site 409026003212 ABC transporter signature motif; other site 409026003213 Walker B; other site 409026003214 D-loop; other site 409026003215 H-loop/switch region; other site 409026003216 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 409026003217 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 409026003218 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 409026003219 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 409026003220 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 409026003221 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 409026003222 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 409026003223 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 409026003224 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 409026003225 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 409026003226 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 409026003227 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 409026003228 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 409026003229 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 409026003230 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 409026003231 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 409026003232 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 409026003233 N-acetyl-D-glucosamine binding site [chemical binding]; other site 409026003234 catalytic residue [active] 409026003235 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 409026003236 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 409026003237 GAF domain; Region: GAF; cl00853 409026003238 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026003239 metal binding site [ion binding]; metal-binding site 409026003240 active site 409026003241 I-site; other site 409026003242 AIR carboxylase; Region: AIRC; cl00310 409026003243 RNA polymerase sigma factor; Provisional; Region: PRK12513 409026003244 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 409026003245 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 409026003246 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 409026003247 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 409026003248 structural tetrad; other site 409026003249 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 409026003250 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 409026003251 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 409026003252 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 409026003253 protein binding site [polypeptide binding]; other site 409026003254 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 409026003255 Domain interface; other site 409026003256 Peptide binding site; other site 409026003257 Active site tetrad [active] 409026003258 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 409026003259 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 409026003260 Cache domain; Region: Cache_1; pfam02743 409026003261 PAS domain S-box; Region: sensory_box; TIGR00229 409026003262 PAS fold; Region: PAS_3; pfam08447 409026003263 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 409026003264 PAS fold; Region: PAS_3; pfam08447 409026003265 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 409026003266 dimer interface [polypeptide binding]; other site 409026003267 phosphorylation site [posttranslational modification] 409026003268 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 409026003269 ATP binding site [chemical binding]; other site 409026003270 Mg2+ binding site [ion binding]; other site 409026003271 G-X-G motif; other site 409026003272 Response regulator receiver domain; Region: Response_reg; pfam00072 409026003273 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 409026003274 active site 409026003275 phosphorylation site [posttranslational modification] 409026003276 intermolecular recognition site; other site 409026003277 dimerization interface [polypeptide binding]; other site 409026003278 Response regulator receiver domain; Region: Response_reg; pfam00072 409026003279 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 409026003280 active site 409026003281 phosphorylation site [posttranslational modification] 409026003282 intermolecular recognition site; other site 409026003283 dimerization interface [polypeptide binding]; other site 409026003284 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 409026003285 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 409026003286 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 409026003287 active site 409026003288 phosphorylation site [posttranslational modification] 409026003289 intermolecular recognition site; other site 409026003290 dimerization interface [polypeptide binding]; other site 409026003291 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 409026003292 Zn2+ binding site [ion binding]; other site 409026003293 Mg2+ binding site [ion binding]; other site 409026003294 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; cl15292 409026003295 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 can...; Region: GT1_like_5; cd04962 409026003296 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 409026003297 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 409026003298 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 409026003299 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 409026003300 substrate binding pocket [chemical binding]; other site 409026003301 membrane-bound complex binding site; other site 409026003302 hinge residues; other site 409026003303 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; cl01409 409026003304 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 409026003305 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 409026003306 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 409026003307 dimer interface [polypeptide binding]; other site 409026003308 FMN binding site [chemical binding]; other site 409026003309 NADPH bind site [chemical binding]; other site 409026003310 hypothetical protein; Provisional; Region: PRK10220 409026003311 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 409026003312 PhnA protein; Region: PhnA; pfam03831 409026003313 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 409026003314 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 409026003315 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 409026003316 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 409026003317 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 409026003318 D-pathway; other site 409026003319 Putative ubiquinol binding site [chemical binding]; other site 409026003320 Low-spin heme (heme b) binding site [chemical binding]; other site 409026003321 Putative water exit pathway; other site 409026003322 Binuclear center (heme o3/CuB) [ion binding]; other site 409026003323 K-pathway; other site 409026003324 Putative proton exit pathway; other site 409026003325 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 409026003326 Subunit I/III interface [polypeptide binding]; other site 409026003327 Subunit III/IV interface [polypeptide binding]; other site 409026003328 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 409026003329 UbiA prenyltransferase family; Region: UbiA; cl00337 409026003330 dipeptidyl carboxypeptidase II; Provisional; Region: PRK10280 409026003331 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 409026003332 active site 409026003333 Zn binding site [ion binding]; other site 409026003334 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 409026003335 SmpB-tmRNA interface; other site 409026003336 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 409026003337 putative coenzyme Q binding site [chemical binding]; other site 409026003338 Ubiquitin-like proteins; Region: UBQ; cl00155 409026003339 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 409026003340 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 409026003341 malate synthase A; Region: malate_syn_A; TIGR01344 409026003342 active site 409026003343 HDOD domain; Region: HDOD; pfam08668 409026003344 GAF domain; Region: GAF; cl00853 409026003345 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 409026003346 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 409026003347 ParA-like protein; Provisional; Region: PHA02518 409026003348 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 409026003349 P-loop; other site 409026003350 Magnesium ion binding site [ion binding]; other site 409026003351 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 409026003352 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 409026003353 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 409026003354 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 409026003355 Coenzyme A binding pocket [chemical binding]; other site 409026003356 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 409026003357 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 409026003358 active site 409026003359 metal binding site [ion binding]; metal-binding site 409026003360 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 409026003361 Domain of unknown function DUF21; Region: DUF21; pfam01595 409026003362 FOG: CBS domain [General function prediction only]; Region: COG0517 409026003363 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 409026003364 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 409026003365 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 409026003366 FeS/SAM binding site; other site 409026003367 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 409026003368 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 409026003369 binding surface 409026003370 TPR motif; other site 409026003371 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 409026003372 binding surface 409026003373 TPR motif; other site 409026003374 cytoskeletal protein RodZ; Provisional; Region: PRK10856 409026003375 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 409026003376 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694; cl15446 409026003377 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 409026003378 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 409026003379 dimer interface [polypeptide binding]; other site 409026003380 motif 1; other site 409026003381 active site 409026003382 motif 2; other site 409026003383 motif 3; other site 409026003384 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 409026003385 anticodon binding site; other site 409026003386 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 409026003387 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 409026003388 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 409026003389 Trp docking motif [polypeptide binding]; other site 409026003390 active site 409026003391 GTP-binding protein Der; Reviewed; Region: PRK00093 409026003392 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 an...; Region: EngA1; cd01894 409026003393 G1 box; other site 409026003394 GTP/Mg2+ binding site [chemical binding]; other site 409026003395 Switch I region; other site 409026003396 G2 box; other site 409026003397 Switch II region; other site 409026003398 G3 box; other site 409026003399 G4 box; other site 409026003400 G5 box; other site 409026003401 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 an...; Region: EngA2; cd01895 409026003402 G1 box; other site 409026003403 GTP/Mg2+ binding site [chemical binding]; other site 409026003404 Switch I region; other site 409026003405 G2 box; other site 409026003406 G3 box; other site 409026003407 Switch II region; other site 409026003408 G4 box; other site 409026003409 G5 box; other site 409026003410 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 409026003411 non-specific DNA binding site [nucleotide binding]; other site 409026003412 salt bridge; other site 409026003413 sequence-specific DNA binding site [nucleotide binding]; other site 409026003414 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 409026003415 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 409026003416 TolB amino-terminal domain; Region: TolB_N; cl00639 409026003417 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 409026003418 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 409026003419 generic binding surface II; other site 409026003420 generic binding surface I; other site 409026003421 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 409026003422 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 409026003423 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; cd04601 409026003424 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 guanine...; Region: IMPDH; cd00381 409026003425 active site 409026003426 GMP synthase; Reviewed; Region: guaA; PRK00074 409026003427 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 409026003428 AMP/PPi binding site [chemical binding]; other site 409026003429 candidate oxyanion hole; other site 409026003430 catalytic triad [active] 409026003431 potential glutamine specificity residues [chemical binding]; other site 409026003432 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 409026003433 ATP Binding subdomain [chemical binding]; other site 409026003434 Ligand Binding sites [chemical binding]; other site 409026003435 Dimerization subdomain; other site 409026003436 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 409026003437 nucleoside/Zn binding site; other site 409026003438 dimer interface [polypeptide binding]; other site 409026003439 catalytic motif [active] 409026003440 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 409026003441 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 409026003442 substrate binding pocket [chemical binding]; other site 409026003443 membrane-bound complex binding site; other site 409026003444 hinge residues; other site 409026003445 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 409026003446 N-acetyl-D-glucosamine binding site [chemical binding]; other site 409026003447 catalytic residue [active] 409026003448 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 409026003449 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 409026003450 dimerization interface [polypeptide binding]; other site 409026003451 ATP binding site [chemical binding]; other site 409026003452 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 409026003453 dimerization interface [polypeptide binding]; other site 409026003454 ATP binding site [chemical binding]; other site 409026003455 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 409026003456 putative active site [active] 409026003457 catalytic triad [active] 409026003458 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 409026003459 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 409026003460 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 409026003461 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 409026003462 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 409026003463 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 409026003464 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 409026003465 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 409026003466 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 409026003467 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 409026003468 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 409026003469 Helix-turn-helix domains; Region: HTH; cl00088 409026003470 Protein of unknown function (DUF2947); Region: DUF2947; pfam11163 409026003471 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 409026003472 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 409026003473 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 409026003474 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 409026003475 active site 409026003476 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 409026003477 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 409026003478 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 409026003479 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 409026003480 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 409026003481 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 409026003482 Peptidase family M9 N-terminal; Region: Peptidase_M9_N; pfam08453 409026003483 Collagenase; Region: Peptidase_M9; pfam01752 409026003484 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 409026003485 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 409026003486 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 409026003487 Protein of unknown function, DUF400; Region: DUF400; cl01141 409026003488 FlgN protein; Region: FlgN; cl09176 409026003489 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 409026003490 SAF domain; Region: SAF; cl00555 409026003491 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 409026003492 Response regulator receiver domain; Region: Response_reg; pfam00072 409026003493 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 409026003494 active site 409026003495 phosphorylation site [posttranslational modification] 409026003496 intermolecular recognition site; other site 409026003497 dimerization interface [polypeptide binding]; other site 409026003498 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 409026003499 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 409026003500 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 409026003501 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 409026003502 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12625 409026003503 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12631 409026003504 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 409026003505 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 409026003506 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 409026003507 Flagellar hook capping protein; Region: FlgD; cl04347 409026003508 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 409026003509 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 409026003510 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 409026003511 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 409026003512 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 409026003513 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 409026003514 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 409026003515 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 409026003516 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 409026003517 Flagellar L-ring protein; Region: FlgH; cl00905 409026003518 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 409026003519 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 409026003520 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 409026003521 Rod binding protein; Region: Rod-binding; cl01626 409026003522 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 409026003523 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08871 409026003524 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 409026003525 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 409026003526 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 409026003527 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 409026003528 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 409026003529 flagellin; Provisional; Region: PRK12806 409026003530 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 409026003531 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 409026003532 flagellin; Provisional; Region: PRK12806 409026003533 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 409026003534 FlaG protein; Region: FlaG; cl00591 409026003535 flagellar capping protein; Reviewed; Region: fliD; PRK08032 409026003536 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 409026003537 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 409026003538 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 409026003539 Flagellar protein FliS; Region: FliS; cl00654 409026003540 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; cl09944 409026003541 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 409026003542 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026003543 Walker A motif; other site 409026003544 ATP binding site [chemical binding]; other site 409026003545 Walker B motif; other site 409026003546 arginine finger; other site 409026003547 Helix-turn-helix domains; Region: HTH; cl00088 409026003548 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 409026003549 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 409026003550 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 409026003551 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 409026003552 ATP binding site [chemical binding]; other site 409026003553 Mg2+ binding site [ion binding]; other site 409026003554 G-X-G motif; other site 409026003555 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 409026003556 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 409026003557 active site 409026003558 phosphorylation site [posttranslational modification] 409026003559 intermolecular recognition site; other site 409026003560 dimerization interface [polypeptide binding]; other site 409026003561 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026003562 Walker A motif; other site 409026003563 ATP binding site [chemical binding]; other site 409026003564 Walker B motif; other site 409026003565 arginine finger; other site 409026003566 Helix-turn-helix domains; Region: HTH; cl00088 409026003567 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 409026003568 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 409026003569 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 409026003570 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 409026003571 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 409026003572 MgtE intracellular N domain; Region: MgtE_N; cl15244 409026003573 FliG C-terminal domain; Region: FliG_C; pfam01706 409026003574 flagellar assembly protein H; Validated; Region: fliH; PRK05687 409026003575 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 409026003576 Flagellar assembly protein FliH; Region: FliH; pfam02108 409026003577 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08972 409026003578 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 409026003579 Walker A motif/ATP binding site; other site 409026003580 Walker B motif; other site 409026003581 Flagellar FliJ protein; Region: FliJ; cl09161 409026003582 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 409026003583 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 409026003584 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 409026003585 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 409026003586 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 409026003587 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 409026003588 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 409026003589 FliP family; Region: FliP; cl00593 409026003590 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 409026003591 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 409026003592 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 409026003593 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 409026003594 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 409026003595 FHIPEP family; Region: FHIPEP; pfam00771 409026003596 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 409026003597 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026003598 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026003599 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 409026003600 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 409026003601 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 409026003602 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 409026003603 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 409026003604 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 409026003605 DNA binding residues [nucleotide binding] 409026003606 Response regulator receiver domain; Region: Response_reg; pfam00072 409026003607 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 409026003608 active site 409026003609 phosphorylation site [posttranslational modification] 409026003610 intermolecular recognition site; other site 409026003611 dimerization interface [polypeptide binding]; other site 409026003612 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 409026003613 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 409026003614 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 409026003615 putative binding surface; other site 409026003616 active site 409026003617 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 409026003618 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 409026003619 ATP binding site [chemical binding]; other site 409026003620 Mg2+ binding site [ion binding]; other site 409026003621 G-X-G motif; other site 409026003622 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 409026003623 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 409026003624 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 409026003625 active site 409026003626 phosphorylation site [posttranslational modification] 409026003627 intermolecular recognition site; other site 409026003628 dimerization interface [polypeptide binding]; other site 409026003629 CheB methylesterase; Region: CheB_methylest; pfam01339 409026003630 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 409026003631 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 409026003632 P-loop; other site 409026003633 Magnesium ion binding site [ion binding]; other site 409026003634 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 409026003635 Magnesium ion binding site [ion binding]; other site 409026003636 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; cd00588 409026003637 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 409026003638 putative CheA interaction surface; other site 409026003639 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 409026003640 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 409026003641 VacJ like lipoprotein; Region: VacJ; cl01073 409026003642 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 409026003643 active site 409026003644 phosphorylation site [posttranslational modification] 409026003645 intermolecular recognition site; other site 409026003646 response regulator of RpoS; Provisional; Region: PRK10693 409026003647 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 409026003648 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; cl11420 409026003649 Major Facilitator Superfamily; Region: MFS_1; pfam07690 409026003650 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 409026003651 transcriptional activator RfaH; Region: RfaH; TIGR01955 409026003652 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 409026003653 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 409026003654 SLBB domain; Region: SLBB; pfam10531 409026003655 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 409026003656 SLBB domain; Region: SLBB; pfam10531 409026003657 SLBB domain; Region: SLBB; pfam10531 409026003658 SLBB-domain like (DUF1017); Region: DUF1017; pfam06251 409026003659 Chain length determinant protein; Region: Wzz; cl01623 409026003660 Chain length determinant protein; Region: Wzz; cl01623 409026003661 Bacterial sugar transferase; Region: Bac_transf; cl00939 409026003662 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 409026003663 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 409026003664 active site 409026003665 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 409026003666 ligand binding site; other site 409026003667 tetramer interface; other site 409026003668 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 409026003669 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026003670 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 409026003671 classical (c) SDRs; Region: SDR_c; cd05233 409026003672 NAD(P) binding site [chemical binding]; other site 409026003673 active site 409026003674 Thiamin pyrophosphokinase, catalytic domain; Region: TPK_catalytic; cl09135 409026003675 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 409026003676 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 409026003677 active site 409026003678 polysaccharide export protein Wza; Provisional; Region: PRK15078 409026003679 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 409026003680 SLBB domain; Region: SLBB; pfam10531 409026003681 Low molecular weight phosphatase family; Region: LMWPc; cd00115 409026003682 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 409026003683 active site 409026003684 tyrosine kinase; Provisional; Region: PRK11519 409026003685 Chain length determinant protein; Region: Wzz; cl01623 409026003686 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026003687 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 409026003688 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026003689 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 409026003690 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026003691 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 409026003692 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 409026003693 NAD binding site [chemical binding]; other site 409026003694 substrate binding site [chemical binding]; other site 409026003695 homodimer interface [polypeptide binding]; other site 409026003696 active site 409026003697 O-Antigen ligase; Region: Wzy_C; cl04850 409026003698 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 409026003699 putative ADP-binding pocket [chemical binding]; other site 409026003700 Bacterial sugar transferase; Region: Bac_transf; cl00939 409026003701 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 409026003702 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 409026003703 inhibitor-cofactor binding pocket; inhibition site 409026003704 pyridoxal 5'-phosphate binding site [chemical binding]; other site 409026003705 catalytic residue [active] 409026003706 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 409026003707 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 409026003708 Active Sites [active] 409026003709 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 409026003710 CysN_ATPS subfamily. CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which...; Region: CysN_ATPS; cd04166 409026003711 CysD dimerization site [polypeptide binding]; other site 409026003712 G1 box; other site 409026003713 putative GEF interaction site [polypeptide binding]; other site 409026003714 GTP/Mg2+ binding site [chemical binding]; other site 409026003715 Switch I region; other site 409026003716 G2 box; other site 409026003717 G3 box; other site 409026003718 Switch II region; other site 409026003719 G4 box; other site 409026003720 G5 box; other site 409026003721 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 409026003722 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 409026003723 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; cl15357 409026003724 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; cl15357 409026003725 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; cl15357 409026003726 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; cl15357 409026003727 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 409026003728 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 409026003729 ligand-binding site [chemical binding]; other site 409026003730 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 409026003731 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 409026003732 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 409026003733 NAD(P) binding site [chemical binding]; other site 409026003734 homodimer interface [polypeptide binding]; other site 409026003735 substrate binding site [chemical binding]; other site 409026003736 active site 409026003737 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 409026003738 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 409026003739 NAD binding site [chemical binding]; other site 409026003740 substrate binding site [chemical binding]; other site 409026003741 homodimer interface [polypeptide binding]; other site 409026003742 active site 409026003743 Transposase IS200 like; Region: Y1_Tnp; cl00848 409026003744 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 409026003745 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 409026003746 Beta-Casp domain; Region: Beta-Casp; cl12567 409026003747 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 409026003748 Cupin domain; Region: Cupin_2; cl09118 409026003749 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 409026003750 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 409026003751 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 409026003752 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 409026003753 active site 409026003754 nucleotide binding site [chemical binding]; other site 409026003755 HIGH motif; other site 409026003756 KMSKS motif; other site 409026003757 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 409026003758 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 409026003759 active site 409026003760 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 409026003761 putative trimer interface [polypeptide binding]; other site 409026003762 putative CoA binding site [chemical binding]; other site 409026003763 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 409026003764 Bacterial sugar transferase; Region: Bac_transf; cl00939 409026003765 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 409026003766 active site 409026003767 MatE; Region: MatE; cl10513 409026003768 colanic acid exporter; Provisional; Region: PRK10459 409026003769 O-Antigen ligase; Region: Wzy_C; cl04850 409026003770 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 409026003771 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 409026003772 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 409026003773 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 409026003774 anti sigma factor interaction site; other site 409026003775 regulatory phosphorylation site [posttranslational modification]; other site 409026003776 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 409026003777 Response regulator receiver domain; Region: Response_reg; pfam00072 409026003778 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 409026003779 active site 409026003780 phosphorylation site [posttranslational modification] 409026003781 intermolecular recognition site; other site 409026003782 dimerization interface [polypeptide binding]; other site 409026003783 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 409026003784 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 409026003785 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 409026003786 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 409026003787 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 409026003788 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 409026003789 dimerization interface [polypeptide binding]; other site 409026003790 PAS domain S-box; Region: sensory_box; TIGR00229 409026003791 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 409026003792 putative active site [active] 409026003793 heme pocket [chemical binding]; other site 409026003794 PAS fold; Region: PAS; pfam00989 409026003795 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 409026003796 putative active site [active] 409026003797 heme pocket [chemical binding]; other site 409026003798 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 409026003799 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 409026003800 dimer interface [polypeptide binding]; other site 409026003801 phosphorylation site [posttranslational modification] 409026003802 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 409026003803 ATP binding site [chemical binding]; other site 409026003804 Mg2+ binding site [ion binding]; other site 409026003805 G-X-G motif; other site 409026003806 Response regulator receiver domain; Region: Response_reg; pfam00072 409026003807 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 409026003808 active site 409026003809 phosphorylation site [posttranslational modification] 409026003810 intermolecular recognition site; other site 409026003811 dimerization interface [polypeptide binding]; other site 409026003812 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 409026003813 putative binding surface; other site 409026003814 active site 409026003815 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 409026003816 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 409026003817 active site 409026003818 phosphorylation site [posttranslational modification] 409026003819 intermolecular recognition site; other site 409026003820 dimerization interface [polypeptide binding]; other site 409026003821 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026003822 Walker A motif; other site 409026003823 ATP binding site [chemical binding]; other site 409026003824 Walker B motif; other site 409026003825 arginine finger; other site 409026003826 Helix-turn-helix domains; Region: HTH; cl00088 409026003827 putative hydrolase; Validated; Region: PRK09248 409026003828 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 409026003829 RNase P subunit p30; Region: RNase_P_p30; cl03389 409026003830 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 409026003831 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 409026003832 NADP binding site [chemical binding]; other site 409026003833 active site 409026003834 putative substrate binding site [chemical binding]; other site 409026003835 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 409026003836 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 409026003837 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 409026003838 PA14 domain; Region: PA14; cl08459 409026003839 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 409026003840 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026003841 JmjC domain, hydroxylase; Region: JmjC; cl15814 409026003842 SapC; Region: SapC; pfam07277 409026003843 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026003844 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 409026003845 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026003846 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026003847 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026003848 Transcriptional regulators [Transcription]; Region: PurR; COG1609 409026003849 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 409026003850 DNA binding site [nucleotide binding] 409026003851 domain linker motif; other site 409026003852 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 409026003853 dimerization interface (closed form) [polypeptide binding]; other site 409026003854 ligand binding site [chemical binding]; other site 409026003855 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 409026003856 putative symporter YagG; Provisional; Region: PRK09669 409026003857 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 409026003858 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 409026003859 putative substrate translocation pore; other site 409026003860 glucose/galactose transporter; Region: gluP; TIGR01272 409026003861 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 409026003862 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 409026003863 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 409026003864 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 409026003865 active site 409026003866 catalytic residues [active] 409026003867 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 409026003868 active site 409026003869 fructokinase; Reviewed; Region: PRK09557 409026003870 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 409026003871 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 409026003872 putative active site [active] 409026003873 Protein of unknown function (DUF2982); Region: DUF2982; pfam11201 409026003874 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 409026003875 ferredoxin-type protein; Provisional; Region: PRK10194 409026003876 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 409026003877 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 409026003878 4Fe-4S binding domain; Region: Fer4; cl02805 409026003879 UDP-glucose 4-epimerase; Region: PLN02240 409026003880 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 409026003881 NAD binding site [chemical binding]; other site 409026003882 homodimer interface [polypeptide binding]; other site 409026003883 active site 409026003884 substrate binding site [chemical binding]; other site 409026003885 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 409026003886 active site 409026003887 tetramer interface; other site 409026003888 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 409026003889 cofactor binding site; other site 409026003890 metal binding site [ion binding]; metal-binding site 409026003891 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 409026003892 aromatic arch; other site 409026003893 DCoH dimer interaction site [polypeptide binding]; other site 409026003894 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 409026003895 DCoH tetramer interaction site [polypeptide binding]; other site 409026003896 substrate binding site [chemical binding]; other site 409026003897 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 409026003898 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 409026003899 putative aromatic amino acid binding site; other site 409026003900 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 409026003901 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026003902 Walker A motif; other site 409026003903 ATP binding site [chemical binding]; other site 409026003904 Walker B motif; other site 409026003905 arginine finger; other site 409026003906 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 409026003907 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 409026003908 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 409026003909 maleylacetoacetate isomerase; Region: maiA; TIGR01262 409026003910 C-terminal domain interface [polypeptide binding]; other site 409026003911 GSH binding site (G-site) [chemical binding]; other site 409026003912 putative dimer interface [polypeptide binding]; other site 409026003913 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 409026003914 dimer interface [polypeptide binding]; other site 409026003915 N-terminal domain interface [polypeptide binding]; other site 409026003916 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 409026003917 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026003918 Helix-turn-helix domains; Region: HTH; cl00088 409026003919 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 409026003920 dimerization interface [polypeptide binding]; other site 409026003921 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 409026003922 Major Facilitator Superfamily; Region: MFS_1; pfam07690 409026003923 putative substrate translocation pore; other site 409026003924 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 409026003925 putative substrate translocation pore; other site 409026003926 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 409026003927 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 409026003928 active site 409026003929 HIGH motif; other site 409026003930 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 409026003931 active site 409026003932 KMSKS motif; other site 409026003933 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 409026003934 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 409026003935 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 409026003936 Walker A/P-loop; other site 409026003937 ATP binding site [chemical binding]; other site 409026003938 Q-loop/lid; other site 409026003939 ABC transporter signature motif; other site 409026003940 Walker B; other site 409026003941 D-loop; other site 409026003942 H-loop/switch region; other site 409026003943 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 409026003944 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 409026003945 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 409026003946 AlkA N-terminal domain; Region: AlkA_N; cl05528 409026003947 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 409026003948 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 409026003949 minor groove reading motif; other site 409026003950 helix-hairpin-helix signature motif; other site 409026003951 substrate binding pocket [chemical binding]; other site 409026003952 active site 409026003953 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 409026003954 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 409026003955 DNA binding site [nucleotide binding] 409026003956 active site 409026003957 helicase 45; Provisional; Region: PTZ00424 409026003958 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 409026003959 ATP binding site [chemical binding]; other site 409026003960 Mg++ binding site [ion binding]; other site 409026003961 motif III; other site 409026003962 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 409026003963 nucleotide binding region [chemical binding]; other site 409026003964 ATP-binding site [chemical binding]; other site 409026003965 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 409026003966 active site 409026003967 catalytic residues [active] 409026003968 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 409026003969 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 409026003970 putative active site [active] 409026003971 catalytic site [active] 409026003972 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 409026003973 putative active site [active] 409026003974 catalytic site [active] 409026003975 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 409026003976 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 409026003977 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 409026003978 active site 409026003979 phosphorylation site [posttranslational modification] 409026003980 intermolecular recognition site; other site 409026003981 dimerization interface [polypeptide binding]; other site 409026003982 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 409026003983 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 409026003984 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026003985 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 and...; Region: PseudoU_synth_RluCD_like; cd02869 409026003986 active site 409026003987 Protein of unknown function, DUF479; Region: DUF479; cl01203 409026003988 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 409026003989 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 409026003990 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 409026003991 Preprotein translocase subunit; Region: YajC; cl00806 409026003992 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 409026003993 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 409026003994 Protein export membrane protein; Region: SecD_SecF; cl14618 409026003995 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 409026003996 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 409026003997 Protein export membrane protein; Region: SecD_SecF; cl14618 409026003998 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 409026003999 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 409026004000 active site residue [active] 409026004001 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026004002 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 409026004003 YaeQ protein; Region: YaeQ; cl01913 409026004004 Protein of unknown function (DUF2492); Region: DUF2492; cl11278 409026004005 Phosphate-starvation-inducible E; Region: PsiE; cl01264 409026004006 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 409026004007 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 409026004008 serine O-acetyltransferase; Region: cysE; TIGR01172 409026004009 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 409026004010 trimer interface [polypeptide binding]; other site 409026004011 active site 409026004012 substrate binding site [chemical binding]; other site 409026004013 CoA binding site [chemical binding]; other site 409026004014 Helix-turn-helix domains; Region: HTH; cl00088 409026004015 Rrf2 family protein; Region: rrf2_super; TIGR00738 409026004016 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 409026004017 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 409026004018 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 409026004019 catalytic residue [active] 409026004020 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 409026004021 trimerization site [polypeptide binding]; other site 409026004022 active site 409026004023 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 409026004024 co-chaperone HscB; Provisional; Region: hscB; PRK05014 409026004025 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 409026004026 HSP70 interaction site [polypeptide binding]; other site 409026004027 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 409026004028 chaperone protein HscA; Provisional; Region: hscA; PRK05183 409026004029 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 409026004030 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 409026004031 catalytic loop [active] 409026004032 iron binding site [ion binding]; other site 409026004033 Protein of unknown function (DUF528); Region: DUF528; cl01123 409026004034 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 409026004035 active site 409026004036 multimer interface [polypeptide binding]; other site 409026004037 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026004038 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026004039 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 409026004040 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 409026004041 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 409026004042 FMN binding site [chemical binding]; other site 409026004043 active site 409026004044 catalytic residues [active] 409026004045 substrate binding site [chemical binding]; other site 409026004046 Protein of unknown function (DUF692); Region: DUF692; cl01263 409026004047 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 409026004048 Protein of unknown function (DUF454); Region: DUF454; cl01063 409026004049 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 409026004050 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14949 409026004051 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026004052 Walker A motif; other site 409026004053 ATP binding site [chemical binding]; other site 409026004054 Walker B motif; other site 409026004055 arginine finger; other site 409026004056 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 409026004057 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 409026004058 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 409026004059 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 409026004060 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 409026004061 FeS/SAM binding site; other site 409026004062 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; cl14869 409026004063 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 409026004064 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 409026004065 active site 409026004066 phosphorylation site [posttranslational modification] 409026004067 intermolecular recognition site; other site 409026004068 dimerization interface [polypeptide binding]; other site 409026004069 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 409026004070 DNA binding residues [nucleotide binding] 409026004071 dimerization interface [polypeptide binding]; other site 409026004072 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 409026004073 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 409026004074 Histidine kinase; Region: HisKA_3; pfam07730 409026004075 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 409026004076 Sulfatase; Region: Sulfatase; cl10460 409026004077 MoxR-like ATPases [General function prediction only]; Region: COG0714 409026004078 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026004079 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 409026004080 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 409026004081 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 409026004082 VWA BatA type: 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...; Region: vWA_BatA_type; cd01467 409026004083 metal ion-dependent adhesion site (MIDAS); other site 409026004084 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 409026004085 metal ion-dependent adhesion site (MIDAS); other site 409026004086 Oxygen tolerance; Region: BatD; pfam13584 409026004087 recombination protein RecR; Reviewed; Region: recR; PRK00076 409026004088 RecR protein; Region: RecR; pfam02132 409026004089 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 409026004090 putative active site [active] 409026004091 putative metal-binding site [ion binding]; other site 409026004092 tetramer interface [polypeptide binding]; other site 409026004093 heat shock protein 90; Provisional; Region: PRK05218 409026004094 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 409026004095 ATP binding site [chemical binding]; other site 409026004096 Mg2+ binding site [ion binding]; other site 409026004097 G-X-G motif; other site 409026004098 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 409026004099 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 409026004100 adenylate kinase; Reviewed; Region: adk; PRK00279 409026004101 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 409026004102 AMP-binding site [chemical binding]; other site 409026004103 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 409026004104 ferrochelatase; Reviewed; Region: hemH; PRK00035 409026004105 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 409026004106 C-terminal domain interface [polypeptide binding]; other site 409026004107 active site 409026004108 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 409026004109 active site 409026004110 N-terminal domain interface [polypeptide binding]; other site 409026004111 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; Region: ribokinase_pfkB_like; cl00192 409026004112 maltose O-acetyltransferase; Provisional; Region: PRK10092 409026004113 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 409026004114 active site 409026004115 substrate binding site [chemical binding]; other site 409026004116 trimer interface [polypeptide binding]; other site 409026004117 CoA binding site [chemical binding]; other site 409026004118 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 409026004119 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 409026004120 Succinylarginine dihydrolase; Region: AstB; cl01511 409026004121 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 409026004122 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 409026004123 active site 409026004124 interdomain interaction site; other site 409026004125 putative metal-binding site [ion binding]; other site 409026004126 nucleotide binding site [chemical binding]; other site 409026004127 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 409026004128 domain I; other site 409026004129 DNA binding groove [nucleotide binding] 409026004130 phosphate binding site [ion binding]; other site 409026004131 domain II; other site 409026004132 domain III; other site 409026004133 nucleotide binding site [chemical binding]; other site 409026004134 catalytic site [active] 409026004135 domain IV; other site 409026004136 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 409026004137 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 409026004138 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 409026004139 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 409026004140 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 409026004141 Helix-turn-helix domains; Region: HTH; cl00088 409026004142 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 409026004143 substrate binding site [chemical binding]; other site 409026004144 dimerization interface [polypeptide binding]; other site 409026004145 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 409026004146 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 409026004147 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 409026004148 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 409026004149 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 409026004150 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 409026004151 Uncharacterised protein family (UPF0227); Region: UPF0227; cl14886 409026004152 Acylphosphatase; Region: Acylphosphatase; cl00551 409026004153 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 409026004154 transcription-repair coupling factor; Provisional; Region: PRK10689 409026004155 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 409026004156 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 409026004157 ATP binding site [chemical binding]; other site 409026004158 putative Mg++ binding site [ion binding]; other site 409026004159 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 409026004160 nucleotide binding region [chemical binding]; other site 409026004161 ATP-binding site [chemical binding]; other site 409026004162 TRCF domain; Region: TRCF; cl04088 409026004163 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 409026004164 FtsX-like permease family; Region: FtsX; pfam02687 409026004165 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 409026004166 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 409026004167 Walker A/P-loop; other site 409026004168 ATP binding site [chemical binding]; other site 409026004169 Q-loop/lid; other site 409026004170 ABC transporter signature motif; other site 409026004171 Walker B; other site 409026004172 D-loop; other site 409026004173 H-loop/switch region; other site 409026004174 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 409026004175 FtsX-like permease family; Region: FtsX; pfam02687 409026004176 nitrobindin heme-binding domain; Region: nitrobindin; cl10502 409026004177 nitrobindin heme-binding domain; Region: nitrobindin; cl10502 409026004178 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026004179 ATP binding site [chemical binding]; other site 409026004180 substrate interface [chemical binding]; other site 409026004181 MoeZ/MoeB domain; Region: MoeZ_MoeB; cl14816 409026004182 YcaO-like family; Region: YcaO; cl09146 409026004183 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026004184 thiazolinyl imide reductase; Region: thiaz-red; TIGR01761 409026004185 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 409026004186 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 409026004187 putative active site [active] 409026004188 Zn binding site [ion binding]; other site 409026004189 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 409026004190 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_4; cd07268 409026004191 putative metal binding site [ion binding]; other site 409026004192 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 409026004193 Ion transport protein; Region: Ion_trans; pfam00520 409026004194 Ion channel; Region: Ion_trans_2; cl11596 409026004195 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 409026004196 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as...; Region: ASCH_yqfb_like; cd06552 409026004197 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 409026004198 Helix-turn-helix domains; Region: HTH; cl00088 409026004199 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 409026004200 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 409026004201 Protein export membrane protein; Region: SecD_SecF; cl14618 409026004202 Protein export membrane protein; Region: SecD_SecF; cl14618 409026004203 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 409026004204 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 409026004205 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 409026004206 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 409026004207 Nitrogen regulatory protein P-II; Region: P-II; cl00412 409026004208 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_17; cd04630 409026004209 tellurium resistance terB-like protein; Region: terB_like; cl11965 409026004210 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 409026004211 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E_like proteins; Region: GAT1_Peptidase_E_like; cd03129 409026004212 catalytic triad [active] 409026004213 active site nucleophile [active] 409026004214 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 409026004215 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 409026004216 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 409026004217 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 409026004218 ligand binding site [chemical binding]; other site 409026004219 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an N-terminal Iron-Sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible...; Region: FNR_N-term_Iron_sulfur_binding; cd06194 409026004220 FAD binding pocket [chemical binding]; other site 409026004221 FAD binding motif [chemical binding]; other site 409026004222 phosphate binding motif [ion binding]; other site 409026004223 beta-alpha-beta structure motif; other site 409026004224 NAD binding pocket [chemical binding]; other site 409026004225 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 409026004226 Protein of unknown function (DUF445); Region: DUF445; pfam04286 409026004227 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 409026004228 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 409026004229 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 409026004230 putative substrate binding pocket [chemical binding]; other site 409026004231 trimer interface [polypeptide binding]; other site 409026004232 asparagine synthetase B; Provisional; Region: asnB; PRK09431 409026004233 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 409026004234 active site 409026004235 dimer interface [polypeptide binding]; other site 409026004236 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 409026004237 Ligand Binding Site [chemical binding]; other site 409026004238 Molecular Tunnel; other site 409026004239 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 409026004240 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 409026004241 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 409026004242 PA/protease or protease-like domain interface [polypeptide binding]; other site 409026004243 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 409026004244 metal binding site [ion binding]; metal-binding site 409026004245 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 409026004246 FAD binding domain; Region: FAD_binding_4; pfam01565 409026004247 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 409026004248 L-lactate permease; Region: Lactate_perm; cl00701 409026004249 glycolate transporter; Provisional; Region: PRK09695 409026004250 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 409026004251 Cache domain; Region: Cache_2; cl07034 409026004252 Histidine kinase; Region: HisKA_3; pfam07730 409026004253 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 409026004254 ATP binding site [chemical binding]; other site 409026004255 Mg2+ binding site [ion binding]; other site 409026004256 G-X-G motif; other site 409026004257 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 409026004258 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 409026004259 active site 409026004260 phosphorylation site [posttranslational modification] 409026004261 intermolecular recognition site; other site 409026004262 dimerization interface [polypeptide binding]; other site 409026004263 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 409026004264 DNA binding residues [nucleotide binding] 409026004265 dimerization interface [polypeptide binding]; other site 409026004266 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 409026004267 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 409026004268 active site 409026004269 substrate binding site [chemical binding]; other site 409026004270 cosubstrate binding site; other site 409026004271 catalytic site [active] 409026004272 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 409026004273 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 409026004274 dimerization interface [polypeptide binding]; other site 409026004275 putative ATP binding site [chemical binding]; other site 409026004276 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 409026004277 Predicted permease [General function prediction only]; Region: COG2056 409026004278 GntP family permease; Region: GntP_permease; cl15264 409026004279 peroxidase; Provisional; Region: PRK15000 409026004280 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 409026004281 dimer interface [polypeptide binding]; other site 409026004282 decamer (pentamer of dimers) interface [polypeptide binding]; other site 409026004283 catalytic triad [active] 409026004284 peroxidatic and resolving cysteines [active] 409026004285 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 409026004286 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 409026004287 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 409026004288 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 409026004289 dimer interface [polypeptide binding]; other site 409026004290 putative active site [active] 409026004291 putative substrate binding site [chemical binding]; other site 409026004292 catalytic site [active] 409026004293 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 409026004294 ligand binding site [chemical binding]; other site 409026004295 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 409026004296 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 409026004297 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 409026004298 active site 409026004299 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 409026004300 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 409026004301 Gram-negative bacterial tonB protein; Region: TonB; cl10048 409026004302 translocation protein TolB; Provisional; Region: tolB; PRK04792 409026004303 TolB amino-terminal domain; Region: TolB_N; cl00639 409026004304 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 409026004305 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 409026004306 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 409026004307 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 409026004308 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 409026004309 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 409026004310 ligand binding site [chemical binding]; other site 409026004311 tol-pal system protein YbgF; Provisional; Region: PRK10803 409026004312 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 409026004313 GSH binding site [chemical binding]; other site 409026004314 catalytic residues [active] 409026004315 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 409026004316 ATP binding site [chemical binding]; other site 409026004317 putative Mg++ binding site [ion binding]; other site 409026004318 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 409026004319 nucleotide binding region [chemical binding]; other site 409026004320 ATP-binding site [chemical binding]; other site 409026004321 Double zinc ribbon; Region: DZR; pfam12773 409026004322 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026004323 Helix-turn-helix domains; Region: HTH; cl00088 409026004324 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 409026004325 putative effector binding pocket; other site 409026004326 dimerization interface [polypeptide binding]; other site 409026004327 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 409026004328 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026004329 oligomerization interface [polypeptide binding]; other site 409026004330 active site 409026004331 NAD+ binding site [chemical binding]; other site 409026004332 acetyl-CoA synthetase; Provisional; Region: PRK00174 409026004333 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 409026004334 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 409026004335 Sodium:solute symporter family; Region: SSF; cl00456 409026004336 PAS fold; Region: PAS_7; pfam12860 409026004337 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 409026004338 dimer interface [polypeptide binding]; other site 409026004339 phosphorylation site [posttranslational modification] 409026004340 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 409026004341 ATP binding site [chemical binding]; other site 409026004342 Mg2+ binding site [ion binding]; other site 409026004343 G-X-G motif; other site 409026004344 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 409026004345 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 409026004346 active site 409026004347 phosphorylation site [posttranslational modification] 409026004348 intermolecular recognition site; other site 409026004349 dimerization interface [polypeptide binding]; other site 409026004350 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 409026004351 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026004352 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 409026004353 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 409026004354 active site 409026004355 phosphorylation site [posttranslational modification] 409026004356 intermolecular recognition site; other site 409026004357 dimerization interface [polypeptide binding]; other site 409026004358 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 409026004359 DNA binding residues [nucleotide binding] 409026004360 dimerization interface [polypeptide binding]; other site 409026004361 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 409026004362 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 409026004363 Coenzyme A binding pocket [chemical binding]; other site 409026004364 NeuB family; Region: NeuB; cl00496 409026004365 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 409026004366 Domain of unknown function (DUF299); Region: DUF299; cl00780 409026004367 phosphoenolpyruvate synthase; Validated; Region: PRK06464 409026004368 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 409026004369 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 409026004370 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 409026004371 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 409026004372 FAD binding domain; Region: FAD_binding_4; pfam01565 409026004373 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 409026004374 Protein of unknown function (DUF1285); Region: DUF1285; cl01571 409026004375 Helix-turn-helix domains; Region: HTH; cl00088 409026004376 Periplasmic lysozyme inhibitor, I-type (PliI) and similar proteins; Region: PliI_like; cd09632 409026004377 dimer interface [polypeptide binding]; other site 409026004378 putative inhibitory loop; other site 409026004379 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 409026004380 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 409026004381 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 409026004382 NAD binding site [chemical binding]; other site 409026004383 Phe binding site; other site 409026004384 Cupin superfamily protein; Region: Cupin_4; pfam08007 409026004385 JmjC domain; Region: JmjC; pfam02373 409026004386 adenylosuccinate lyase; Provisional; Region: PRK09285 409026004387 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 409026004388 tetramer interface [polypeptide binding]; other site 409026004389 active site 409026004390 Protein of unknown function (DUF489); Region: DUF489; cl01097 409026004391 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 409026004392 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 409026004393 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 409026004394 nudix motif; other site 409026004395 PseudoU_synth_RluE: Pseudouridine synthase, Escherichia coli RluE. This group is comprised of bacterial proteins similar to E. coli RluE. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines; Region: PseudoU_synth_RluE; cd02566 409026004396 pseudouridine synthase; Region: TIGR00093 409026004397 probable active site [active] 409026004398 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 409026004399 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 409026004400 DNA-binding site [nucleotide binding]; DNA binding site 409026004401 RNA-binding motif; other site 409026004402 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 409026004403 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 409026004404 Clp amino terminal domain; Region: Clp_N; pfam02861 409026004405 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026004406 Walker A motif; other site 409026004407 ATP binding site [chemical binding]; other site 409026004408 Walker B motif; other site 409026004409 arginine finger; other site 409026004410 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026004411 Walker A motif; other site 409026004412 ATP binding site [chemical binding]; other site 409026004413 Walker B motif; other site 409026004414 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 409026004415 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 409026004416 rRNA binding site [nucleotide binding]; other site 409026004417 predicted 30S ribosome binding site; other site 409026004418 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 409026004419 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 409026004420 Leucyl/phenylalanyl-tRNA protein transferase; Region: Leu_Phe_trans; cl01006 409026004421 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 409026004422 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 409026004423 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 409026004424 DNA-binding site [nucleotide binding]; DNA binding site 409026004425 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 409026004426 pyridoxal 5'-phosphate binding site [chemical binding]; other site 409026004427 homodimer interface [polypeptide binding]; other site 409026004428 catalytic residue [active] 409026004429 LysE type translocator; Region: LysE; cl00565 409026004430 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 409026004431 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 409026004432 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 409026004433 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 409026004434 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 409026004435 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 409026004436 active site 409026004437 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 409026004438 GST_N family, Omega-like subfamily; composed of uncharacterized proteins with similarity to class Omega GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_Omega_like; cd03060 409026004439 putative GSH binding site (G-site) [chemical binding]; other site 409026004440 active site cysteine [active] 409026004441 putative C-terminal domain interface [polypeptide binding]; other site 409026004442 putative dimer interface [polypeptide binding]; other site 409026004443 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 409026004444 putative N-terminal domain interface [polypeptide binding]; other site 409026004445 putative dimer interface [polypeptide binding]; other site 409026004446 putative substrate binding pocket (H-site) [chemical binding]; other site 409026004447 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 409026004448 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 409026004449 active site residue [active] 409026004450 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 409026004451 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 409026004452 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 409026004453 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 409026004454 dimer interface [polypeptide binding]; other site 409026004455 active site residues [active] 409026004456 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 409026004457 putative chaperone; Provisional; Region: PRK11678 409026004458 Uncharacterised protein family (UPF0075); Region: UPF0075; cl04217 409026004459 CreA protein; Region: CreA; pfam05981 409026004460 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 409026004461 GTPase RsgA; Reviewed; Region: PRK01889 409026004462 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 motifs...; Region: YjeQ_engC; cd01854 409026004463 GTPase/OB domain interface [polypeptide binding]; other site 409026004464 GTPase/Zn-binding domain interface [polypeptide binding]; other site 409026004465 GTP/Mg2+ binding site [chemical binding]; other site 409026004466 G4 box; other site 409026004467 G5 box; other site 409026004468 G1 box; other site 409026004469 Switch I region; other site 409026004470 G2 box; other site 409026004471 G3 box; other site 409026004472 Switch II region; other site 409026004473 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 409026004474 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 409026004475 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 409026004476 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 409026004477 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 409026004478 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 409026004479 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026004480 metal binding site [ion binding]; metal-binding site 409026004481 active site 409026004482 I-site; other site 409026004483 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 409026004484 Uncharacterized conserved protein [Function unknown]; Region: COG0585 409026004485 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 409026004486 putative phosphate binding site [ion binding]; other site 409026004487 putative catalytic site [active] 409026004488 active site 409026004489 metal binding site A [ion binding]; metal-binding site 409026004490 DNA binding site [nucleotide binding] 409026004491 putative AP binding site [nucleotide binding]; other site 409026004492 putative metal binding site B [ion binding]; other site 409026004493 YCII-related domain; Region: YCII; cl00999 409026004494 Intracellular septation protein A; Region: IspA; cl01098 409026004495 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 409026004496 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 409026004497 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 409026004498 inhibitor site; inhibition site 409026004499 active site 409026004500 dimer interface [polypeptide binding]; other site 409026004501 catalytic residue [active] 409026004502 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 409026004503 Transposase; Region: DEDD_Tnp_IS110; pfam01548 409026004504 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 409026004505 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 409026004506 Transposase; Region: DEDD_Tnp_IS110; pfam01548 409026004507 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 409026004508 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 409026004509 Transposase; Region: DEDD_Tnp_IS110; pfam01548 409026004510 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 409026004511 Protein of unknown function (DUF3644); Region: DUF3644; pfam12358 409026004512 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 409026004513 integron integrase; Region: integrase_gron; TIGR02249 409026004514 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 409026004515 Int/Topo IB signature motif; other site 409026004516 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 409026004517 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 409026004518 substrate binding site [chemical binding]; other site 409026004519 active site 409026004520 catalytic residues [active] 409026004521 heterodimer interface [polypeptide binding]; other site 409026004522 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 409026004523 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 409026004524 pyridoxal 5'-phosphate binding site [chemical binding]; other site 409026004525 catalytic residue [active] 409026004526 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 409026004527 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 409026004528 active site 409026004529 ribulose/triose binding site [chemical binding]; other site 409026004530 phosphate binding site [ion binding]; other site 409026004531 substrate (anthranilate) binding pocket [chemical binding]; other site 409026004532 product (indole) binding pocket [chemical binding]; other site 409026004533 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 409026004534 active site 409026004535 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 409026004536 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 409026004537 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 409026004538 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 409026004539 Glutamine amidotransferase class-I; Region: GATase; pfam00117 409026004540 glutamine binding [chemical binding]; other site 409026004541 catalytic triad [active] 409026004542 anthranilate synthase component I; Provisional; Region: PRK13564 409026004543 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 409026004544 chorismate binding enzyme; Region: Chorismate_bind; cl10555 409026004545 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 409026004546 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 409026004547 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 409026004548 ScpA/B protein; Region: ScpA_ScpB; cl00598 409026004549 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 409026004550 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 409026004551 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 409026004552 RNA binding surface [nucleotide binding]; other site 409026004553 PseudoU_synth_RluB: Pseudouridine synthase, Escherichia coli RluB like. This group is comprised of bacterial and eukaryotic proteins similar to E. coli RluB. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluB; cd02556 409026004554 probable active site [active] 409026004555 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026004556 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 409026004557 NAD(P) binding site [chemical binding]; other site 409026004558 active site 409026004559 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 409026004560 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 409026004561 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 409026004562 putative inner membrane peptidase; Provisional; Region: PRK11778 409026004563 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 409026004564 tandem repeat interface [polypeptide binding]; other site 409026004565 oligomer interface [polypeptide binding]; other site 409026004566 active site residues [active] 409026004567 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 409026004568 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 409026004569 Protein of unknown function, DUF481; Region: DUF481; cl01213 409026004570 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 409026004571 active site 409026004572 catalytic triad [active] 409026004573 oxyanion hole [active] 409026004574 switch loop; other site 409026004575 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 409026004576 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 409026004577 Walker A/P-loop; other site 409026004578 ATP binding site [chemical binding]; other site 409026004579 Q-loop/lid; other site 409026004580 ABC transporter signature motif; other site 409026004581 Walker B; other site 409026004582 D-loop; other site 409026004583 H-loop/switch region; other site 409026004584 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 409026004585 FtsX-like permease family; Region: FtsX; pfam02687 409026004586 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 409026004587 TIGR01777 family protein; Region: yfcH 409026004588 putative NAD(P) binding site [chemical binding]; other site 409026004589 putative active site [active] 409026004590 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 409026004591 Domain of unknown function DUF20; Region: UPF0118; cl00465 409026004592 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 409026004593 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 409026004594 S-adenosylmethionine binding site [chemical binding]; other site 409026004595 phosphate acetyltransferase; Reviewed; Region: PRK05632 409026004596 DRTGG domain; Region: DRTGG; cl12147 409026004597 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 409026004598 Acetokinase family; Region: Acetate_kinase; cl01029 409026004599 Protein of unknown function, DUF412; Region: DUF412; cl01183 409026004600 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 409026004601 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 409026004602 FeS/SAM binding site; other site 409026004603 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 409026004604 Pyruvate formate lyase 1; Region: PFL1; cd01678 409026004605 coenzyme A binding site [chemical binding]; other site 409026004606 active site 409026004607 catalytic residues [active] 409026004608 glycine loop; other site 409026004609 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 409026004610 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 409026004611 FOG: CBS domain [General function prediction only]; Region: COG0517 409026004612 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 409026004613 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 409026004614 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 409026004615 Helix-turn-helix domains; Region: HTH; cl00088 409026004616 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 409026004617 putative dimerization interface [polypeptide binding]; other site 409026004618 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 409026004619 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026004620 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026004621 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 409026004622 gating phenylalanine in ion channel; other site 409026004623 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 409026004624 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 409026004625 Helix-turn-helix domains; Region: HTH; cl00088 409026004626 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 409026004627 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 409026004628 dimer interface [polypeptide binding]; other site 409026004629 pyridoxal 5'-phosphate binding site [chemical binding]; other site 409026004630 catalytic residue [active] 409026004631 RDD family; Region: RDD; cl00746 409026004632 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 409026004633 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 409026004634 active site 409026004635 phosphorylation site [posttranslational modification] 409026004636 intermolecular recognition site; other site 409026004637 Response regulator receiver domain; Region: Response_reg; pfam00072 409026004638 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 409026004639 active site 409026004640 phosphorylation site [posttranslational modification] 409026004641 intermolecular recognition site; other site 409026004642 dimerization interface [polypeptide binding]; other site 409026004643 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026004644 metal binding site [ion binding]; metal-binding site 409026004645 active site 409026004646 I-site; other site 409026004647 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 409026004648 putative ligand binding site [chemical binding]; other site 409026004649 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 409026004650 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 409026004651 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 409026004652 Walker A/P-loop; other site 409026004653 ATP binding site [chemical binding]; other site 409026004654 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 409026004655 ABC transporter signature motif; other site 409026004656 Walker B; other site 409026004657 D-loop; other site 409026004658 H-loop/switch region; other site 409026004659 cell division protein ZipA; Provisional; Region: PRK03427 409026004660 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 409026004661 FtsZ protein binding site [polypeptide binding]; other site 409026004662 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 409026004663 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 409026004664 nucleotide binding pocket [chemical binding]; other site 409026004665 K-X-D-G motif; other site 409026004666 catalytic site [active] 409026004667 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 409026004668 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 409026004669 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 409026004670 Dimer interface [polypeptide binding]; other site 409026004671 BRCT sequence motif; other site 409026004672 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 409026004673 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 409026004674 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 409026004675 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 409026004676 Zn2+ binding site [ion binding]; other site 409026004677 Mg2+ binding site [ion binding]; other site 409026004678 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 409026004679 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 409026004680 putative NAD(P) binding site [chemical binding]; other site 409026004681 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 409026004682 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 409026004683 catalytic residues [active] 409026004684 hinge region; other site 409026004685 alpha helical domain; other site 409026004686 Predicted membrane protein [Function unknown]; Region: COG4327; cl01781 409026004687 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 409026004688 Sodium:solute symporter family; Region: SSF; cl00456 409026004689 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 409026004690 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 409026004691 ligand binding site [chemical binding]; other site 409026004692 flexible hinge region; other site 409026004693 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 409026004694 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 409026004695 metal binding triad; other site 409026004696 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 409026004697 active site 409026004698 substrate binding site [chemical binding]; other site 409026004699 catalytic site [active] 409026004700 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 409026004701 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 409026004702 dimer interface [polypeptide binding]; other site 409026004703 phosphorylation site [posttranslational modification] 409026004704 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 409026004705 ATP binding site [chemical binding]; other site 409026004706 Mg2+ binding site [ion binding]; other site 409026004707 G-X-G motif; other site 409026004708 Response regulator receiver domain; Region: Response_reg; pfam00072 409026004709 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 409026004710 active site 409026004711 phosphorylation site [posttranslational modification] 409026004712 intermolecular recognition site; other site 409026004713 dimerization interface [polypeptide binding]; other site 409026004714 Heme NO binding; Region: HNOB; cl15268 409026004715 NC domain; Region: NC; pfam04970 409026004716 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 409026004717 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 409026004718 dimer interface [polypeptide binding]; other site 409026004719 active site 409026004720 CoA binding pocket [chemical binding]; other site 409026004721 Transcriptional regulators [Transcription]; Region: GntR; COG1802 409026004722 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 409026004723 DNA-binding site [nucleotide binding]; DNA binding site 409026004724 FCD domain; Region: FCD; cl11656 409026004725 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 409026004726 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 409026004727 dimer interface [polypeptide binding]; other site 409026004728 NADP binding site [chemical binding]; other site 409026004729 catalytic residues [active] 409026004730 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 409026004731 Proline racemase; Region: Pro_racemase; pfam05544 409026004732 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 409026004733 inhibitor site; inhibition site 409026004734 active site 409026004735 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 409026004736 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 409026004737 Proline racemase; Region: Pro_racemase; pfam05544 409026004738 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026004739 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 409026004740 proline aminopeptidase P II; Provisional; Region: PRK10879 409026004741 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 409026004742 active site 409026004743 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 409026004744 active site 409026004745 motif I; other site 409026004746 motif II; other site 409026004747 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 409026004748 PAS fold; Region: PAS_3; pfam08447 409026004749 putative active site [active] 409026004750 heme pocket [chemical binding]; other site 409026004751 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 409026004752 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 409026004753 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 409026004754 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 409026004755 FAD binding domain; Region: FAD_binding_4; pfam01565 409026004756 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 409026004757 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 409026004758 Helix-turn-helix domains; Region: HTH; cl00088 409026004759 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 409026004760 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 409026004761 pantothenate kinase; Provisional; Region: PRK05439 409026004762 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in...; Region: PanK; cd02025 409026004763 ATP-binding site [chemical binding]; other site 409026004764 CoA-binding site [chemical binding]; other site 409026004765 Mg2+-binding site [ion binding]; other site 409026004766 elongation factor Tu; Reviewed; Region: PRK00049 409026004767 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 409026004768 G1 box; other site 409026004769 GEF interaction site [polypeptide binding]; other site 409026004770 GTP/Mg2+ binding site [chemical binding]; other site 409026004771 Switch I region; other site 409026004772 G2 box; other site 409026004773 G3 box; other site 409026004774 Switch II region; other site 409026004775 G4 box; other site 409026004776 G5 box; other site 409026004777 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 409026004778 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 409026004779 Antibiotic Binding Site [chemical binding]; other site 409026004780 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 409026004781 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 409026004782 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 409026004783 putative homodimer interface [polypeptide binding]; other site 409026004784 KOW motif; Region: KOW; cl00354 409026004785 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 409026004786 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 409026004787 23S rRNA interface [nucleotide binding]; other site 409026004788 L7/L12 interface [polypeptide binding]; other site 409026004789 putative thiostrepton binding site; other site 409026004790 L25 interface [polypeptide binding]; other site 409026004791 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 409026004792 mRNA/rRNA interface [nucleotide binding]; other site 409026004793 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 409026004794 23S rRNA interface [nucleotide binding]; other site 409026004795 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 409026004796 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 409026004797 core dimer interface [polypeptide binding]; other site 409026004798 peripheral dimer interface [polypeptide binding]; other site 409026004799 L10 interface [polypeptide binding]; other site 409026004800 L11 interface [polypeptide binding]; other site 409026004801 putative EF-Tu interaction site [polypeptide binding]; other site 409026004802 putative EF-G interaction site [polypeptide binding]; other site 409026004803 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 409026004804 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 409026004805 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 409026004806 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 409026004807 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 409026004808 RPB11 interaction site [polypeptide binding]; other site 409026004809 RPB12 interaction site [polypeptide binding]; other site 409026004810 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 409026004811 RPB3 interaction site [polypeptide binding]; other site 409026004812 RPB1 interaction site [polypeptide binding]; other site 409026004813 RPB11 interaction site [polypeptide binding]; other site 409026004814 RPB10 interaction site [polypeptide binding]; other site 409026004815 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 409026004816 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 409026004817 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 409026004818 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 409026004819 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 409026004820 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 409026004821 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 409026004822 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 409026004823 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 409026004824 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 409026004825 DNA binding site [nucleotide binding] 409026004826 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 409026004827 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 409026004828 S17 interaction site [polypeptide binding]; other site 409026004829 S8 interaction site; other site 409026004830 16S rRNA interaction site [nucleotide binding]; other site 409026004831 streptomycin interaction site [chemical binding]; other site 409026004832 23S rRNA interaction site [nucleotide binding]; other site 409026004833 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 409026004834 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 409026004835 elongation factor G; Reviewed; Region: PRK00007 409026004836 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 so...; Region: EF-G; cd01886 409026004837 G1 box; other site 409026004838 putative GEF interaction site [polypeptide binding]; other site 409026004839 GTP/Mg2+ binding site [chemical binding]; other site 409026004840 Switch I region; other site 409026004841 G2 box; other site 409026004842 G3 box; other site 409026004843 Switch II region; other site 409026004844 G4 box; other site 409026004845 G5 box; other site 409026004846 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 409026004847 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 409026004848 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 409026004849 elongation factor Tu; Reviewed; Region: PRK00049 409026004850 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 409026004851 G1 box; other site 409026004852 GEF interaction site [polypeptide binding]; other site 409026004853 GTP/Mg2+ binding site [chemical binding]; other site 409026004854 Switch I region; other site 409026004855 G2 box; other site 409026004856 G3 box; other site 409026004857 Switch II region; other site 409026004858 G4 box; other site 409026004859 G5 box; other site 409026004860 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 409026004861 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 409026004862 Antibiotic Binding Site [chemical binding]; other site 409026004863 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 409026004864 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 409026004865 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 409026004866 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 409026004867 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 409026004868 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 409026004869 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 409026004870 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 409026004871 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 409026004872 putative translocon binding site; other site 409026004873 protein-rRNA interface [nucleotide binding]; other site 409026004874 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 409026004875 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 409026004876 G-X-X-G motif; other site 409026004877 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 409026004878 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 409026004879 23S rRNA interface [nucleotide binding]; other site 409026004880 5S rRNA interface [nucleotide binding]; other site 409026004881 putative antibiotic binding site [chemical binding]; other site 409026004882 L25 interface [polypeptide binding]; other site 409026004883 L27 interface [polypeptide binding]; other site 409026004884 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 409026004885 23S rRNA interface [nucleotide binding]; other site 409026004886 putative translocon interaction site; other site 409026004887 signal recognition particle (SRP54) interaction site; other site 409026004888 L23 interface [polypeptide binding]; other site 409026004889 trigger factor interaction site; other site 409026004890 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 409026004891 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 409026004892 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 409026004893 KOW motif; Region: KOW; cl00354 409026004894 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 409026004895 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 409026004896 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 409026004897 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 409026004898 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 409026004899 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 409026004900 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 409026004901 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 409026004902 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 409026004903 23S rRNA interface [nucleotide binding]; other site 409026004904 L21e interface [polypeptide binding]; other site 409026004905 5S rRNA interface [nucleotide binding]; other site 409026004906 L27 interface [polypeptide binding]; other site 409026004907 L5 interface [polypeptide binding]; other site 409026004908 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 409026004909 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 409026004910 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 409026004911 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 409026004912 23S rRNA binding site [nucleotide binding]; other site 409026004913 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 409026004914 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 409026004915 SecY translocase; Region: SecY; pfam00344 409026004916 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 409026004917 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 409026004918 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 409026004919 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 409026004920 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 409026004921 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 409026004922 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 409026004923 RNA binding surface [nucleotide binding]; other site 409026004924 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 409026004925 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 409026004926 alphaNTD homodimer interface [polypeptide binding]; other site 409026004927 alphaNTD - beta interaction site [polypeptide binding]; other site 409026004928 alphaNTD - beta' interaction site [polypeptide binding]; other site 409026004929 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 409026004930 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 409026004931 CcmE; Region: CcmE; cl00994 409026004932 Heme exporter protein D (CcmD); Region: CcmD; cl11475 409026004933 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 409026004934 CcmB protein; Region: CcmB; cl01016 409026004935 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 409026004936 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026004937 Walker A/P-loop; other site 409026004938 ATP binding site [chemical binding]; other site 409026004939 Q-loop/lid; other site 409026004940 ABC transporter signature motif; other site 409026004941 Walker B; other site 409026004942 D-loop; other site 409026004943 H-loop/switch region; other site 409026004944 Cytochrome c; Region: Cytochrom_C; cl11414 409026004945 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 409026004946 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 409026004947 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 409026004948 binding surface 409026004949 TPR motif; other site 409026004950 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 409026004951 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 409026004952 catalytic residues [active] 409026004953 central insert; other site 409026004954 Cytochrome C biogenesis protein; Region: CcmH; cl01179 409026004955 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 409026004956 catalytic residues [active] 409026004957 competence damage-inducible protein A; Provisional; Region: PRK00549 409026004958 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 409026004959 putative MPT binding site; other site 409026004960 Competence-damaged protein; Region: CinA; cl00666 409026004961 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 409026004962 Phosphoenolpyruvate carboxylase [Carbohydrate transport and metabolism; Energy production and conversion]; Region: COG1892; cl14656 409026004963 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 409026004964 acetylornithine deacetylase; Provisional; Region: PRK05111 409026004965 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 409026004966 metal binding site [ion binding]; metal-binding site 409026004967 putative dimer interface [polypeptide binding]; other site 409026004968 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 409026004969 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026004970 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 409026004971 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 409026004972 nucleotide binding site [chemical binding]; other site 409026004973 substrate binding site [chemical binding]; other site 409026004974 ornithine carbamoyltransferase; Provisional; Region: PRK14805 409026004975 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 409026004976 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026004977 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 409026004978 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 409026004979 ANP binding site [chemical binding]; other site 409026004980 Substrate Binding Site II [chemical binding]; other site 409026004981 Substrate Binding Site I [chemical binding]; other site 409026004982 argininosuccinate lyase; Provisional; Region: PRK04833 409026004983 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 409026004984 active sites [active] 409026004985 tetramer interface [polypeptide binding]; other site 409026004986 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 409026004987 Transglycosylase; Region: Transgly; cl07896 409026004988 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 409026004989 Cell division protein FtsA; Region: FtsA; cl11496 409026004990 Competence protein A; Region: Competence_A; pfam11104 409026004991 Cell division protein FtsA; Region: FtsA; cl11496 409026004992 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 409026004993 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 409026004994 Pilus assembly protein, PilO; Region: PilO; cl01234 409026004995 Pilus assembly protein, PilP; Region: PilP; cl01235 409026004996 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 409026004997 Secretin and TonB N terminus short domain; Region: STN; cl06624 409026004998 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 409026004999 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 409026005000 Shikimate kinase; Region: SKI; pfam01202 409026005001 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 409026005002 ADP binding site [chemical binding]; other site 409026005003 magnesium binding site [ion binding]; other site 409026005004 putative shikimate binding site; other site 409026005005 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 409026005006 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 409026005007 active site 409026005008 dimer interface [polypeptide binding]; other site 409026005009 metal binding site [ion binding]; metal-binding site 409026005010 Sporulation related domain; Region: SPOR; cl10051 409026005011 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 409026005012 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 409026005013 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 409026005014 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 409026005015 substrate binding site [chemical binding]; other site 409026005016 hexamer interface [polypeptide binding]; other site 409026005017 metal binding site [ion binding]; metal-binding site 409026005018 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 409026005019 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 409026005020 motif II; other site 409026005021 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 409026005022 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 409026005023 active site 409026005024 HIGH motif; other site 409026005025 dimer interface [polypeptide binding]; other site 409026005026 KMSKS motif; other site 409026005027 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 409026005028 Helix-turn-helix domains; Region: HTH; cl00088 409026005029 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 409026005030 dimerization interface [polypeptide binding]; other site 409026005031 EamA-like transporter family; Region: EamA; cl01037 409026005032 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 409026005033 BON domain; Region: BON; cl02771 409026005034 BON domain; Region: BON; cl02771 409026005035 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 409026005036 dimer interface [polypeptide binding]; other site 409026005037 active site 409026005038 Uncharacterised protein family UPF0102; Region: UPF0102; cl00516 409026005039 LppC putative lipoprotein; Region: LppC; pfam04348 409026005040 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 409026005041 putative ligand binding site [chemical binding]; other site 409026005042 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 409026005043 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 409026005044 Cadherin repeat domain; Cadherins are glycoproteins involved in Ca2+-mediated cell-cell adhesion; these domains occur as repeats in the extracellular regions which are thought to mediate cell-cell contact when bound to calcium; plays a role in cell fate; Region: CA; cl02468 409026005045 Ca2+ binding site [ion binding]; other site 409026005046 Regulator of G protein signaling (RGS) domain superfamily; Region: RGS; cl02565 409026005047 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 409026005048 hypothetical protein; Provisional; Region: PRK10279 409026005049 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 409026005050 nucleophile elbow; other site 409026005051 Surface antigen; Region: Bac_surface_Ag; cl03097 409026005052 LysR family transcriptional regulator; Provisional; Region: PRK14997 409026005053 Helix-turn-helix domains; Region: HTH; cl00088 409026005054 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like_1; cd08470 409026005055 putative effector binding pocket; other site 409026005056 putative dimerization interface [polypeptide binding]; other site 409026005057 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 409026005058 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 409026005059 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 409026005060 substrate binding site [chemical binding]; other site 409026005061 catalytic Zn binding site [ion binding]; other site 409026005062 NAD binding site [chemical binding]; other site 409026005063 structural Zn binding site [ion binding]; other site 409026005064 dimer interface [polypeptide binding]; other site 409026005065 Predicted esterase [General function prediction only]; Region: COG0627 409026005066 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 409026005067 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 409026005068 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 409026005069 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 409026005070 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 409026005071 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 409026005072 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 409026005073 N-terminal plug; other site 409026005074 ligand-binding site [chemical binding]; other site 409026005075 siderophore ferric iron reductase, AHA_1954 family; Region: sidero_Fe_reduc; TIGR03950 409026005076 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 409026005077 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 409026005078 Walker A/P-loop; other site 409026005079 ATP binding site [chemical binding]; other site 409026005080 Q-loop/lid; other site 409026005081 ABC transporter signature motif; other site 409026005082 Walker B; other site 409026005083 D-loop; other site 409026005084 H-loop/switch region; other site 409026005085 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 409026005086 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 409026005087 siderophore binding site; other site 409026005088 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 409026005089 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 409026005090 ABC-ATPase subunit interface; other site 409026005091 dimer interface [polypeptide binding]; other site 409026005092 putative PBP binding regions; other site 409026005093 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 409026005094 ABC-ATPase subunit interface; other site 409026005095 dimer interface [polypeptide binding]; other site 409026005096 putative PBP binding regions; other site 409026005097 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 409026005098 HupE / UreJ protein; Region: HupE_UreJ; cl01011 409026005099 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 409026005100 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 409026005101 active site 409026005102 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 409026005103 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026005104 Helix-turn-helix domains; Region: HTH; cl00088 409026005105 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 409026005106 dimerization interface [polypeptide binding]; other site 409026005107 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 409026005108 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 409026005109 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 409026005110 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026005111 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026005112 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 409026005113 active site 409026005114 Zn binding site [ion binding]; other site 409026005115 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 409026005116 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 409026005117 active site 409026005118 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 409026005119 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 409026005120 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 409026005121 putative active site [active] 409026005122 putative metal binding site [ion binding]; other site 409026005123 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 409026005124 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026005125 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026005126 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 409026005127 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 409026005128 Peptidase S8 family domain, uncharacterized subfamily 3; Region: Peptidases_S8_3; cd04852 409026005129 active site 409026005130 catalytic triad [active] 409026005131 PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases. This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease from...; Region: PA_subtilisin_like; cd02120 409026005132 PA/protease or protease-like domain interface [polypeptide binding]; other site 409026005133 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 409026005134 catalytic residues [active] 409026005135 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 409026005136 putative active site [active] 409026005137 catalytic triad [active] 409026005138 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 409026005139 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 409026005140 DNA binding site [nucleotide binding] 409026005141 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 409026005142 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 409026005143 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 409026005144 structural tetrad; other site 409026005145 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 409026005146 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 409026005147 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 409026005148 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 409026005149 MAPEG family; Region: MAPEG; cl09190 409026005150 hypothetical protein; Provisional; Region: PRK01254 409026005151 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 409026005152 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 409026005153 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 409026005154 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 409026005155 Peptidase family M23; Region: Peptidase_M23; pfam01551 409026005156 Peptidase family M23; Region: Peptidase_M23; pfam01551 409026005157 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 409026005158 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 409026005159 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 409026005160 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 409026005161 trimer interface [polypeptide binding]; other site 409026005162 eyelet of channel; other site 409026005163 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 409026005164 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 409026005165 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 409026005166 4Fe-4S binding domain; Region: Fer4; cl02805 409026005167 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 409026005168 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 409026005169 putative [4Fe-4S] binding site [ion binding]; other site 409026005170 putative molybdopterin cofactor binding site [chemical binding]; other site 409026005171 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 409026005172 molybdopterin cofactor binding site; other site 409026005173 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026005174 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 409026005175 dimerization interface [polypeptide binding]; other site 409026005176 tetrathionate reductase subunit B; Provisional; Region: PRK14993 409026005177 4Fe-4S binding domain; Region: Fer4; cl02805 409026005178 tetrathionate reductase subunit A; Provisional; Region: PRK14991 409026005179 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 409026005180 molybdopterin cofactor binding site; other site 409026005181 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 409026005182 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 409026005183 molybdopterin cofactor binding site; other site 409026005184 Family of unknown function (DUF500); Region: DUF500; cl01109 409026005185 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 409026005186 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 409026005187 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 409026005188 dimer interface [polypeptide binding]; other site 409026005189 phosphorylation site [posttranslational modification] 409026005190 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 409026005191 ATP binding site [chemical binding]; other site 409026005192 Mg2+ binding site [ion binding]; other site 409026005193 G-X-G motif; other site 409026005194 Response regulator receiver domain; Region: Response_reg; pfam00072 409026005195 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 409026005196 active site 409026005197 phosphorylation site [posttranslational modification] 409026005198 intermolecular recognition site; other site 409026005199 dimerization interface [polypeptide binding]; other site 409026005200 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 409026005201 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 409026005202 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 409026005203 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 409026005204 active site 409026005205 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 409026005206 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 409026005207 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 409026005208 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 409026005209 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 409026005210 DXD motif; other site 409026005211 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 409026005212 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 409026005213 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 409026005214 active site 409026005215 Substrate binding site; other site 409026005216 Mg++ binding site; other site 409026005217 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 409026005218 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 409026005219 anti sigma factor interaction site; other site 409026005220 regulatory phosphorylation site [posttranslational modification]; other site 409026005221 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 409026005222 active site 409026005223 phosphorylation site [posttranslational modification] 409026005224 intermolecular recognition site; other site 409026005225 dimerization interface [polypeptide binding]; other site 409026005226 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 409026005227 Nitrous oxide-stimulated promoter; Region: YgbA_NO; cl08119 409026005228 Protein of unknown function (DUF3630); Region: DUF3630; pfam12305 409026005229 Phosphotransferase enzyme family; Region: APH; pfam01636 409026005230 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cl15691 409026005231 active site 409026005232 ATP binding site [chemical binding]; other site 409026005233 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 409026005234 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 409026005235 catalytic residues [active] 409026005236 hinge region; other site 409026005237 alpha helical domain; other site 409026005238 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 409026005239 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 409026005240 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; cl09210 409026005241 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 409026005242 thiosulfate reductase PhsA; Provisional; Region: PRK15488 409026005243 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 409026005244 molybdopterin cofactor binding site; other site 409026005245 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 409026005246 putative molybdopterin cofactor binding site; other site 409026005247 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 409026005248 4Fe-4S binding domain; Region: Fer4; cl02805 409026005249 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 409026005250 dimerization interface [polypeptide binding]; other site 409026005251 putative DNA binding site [nucleotide binding]; other site 409026005252 putative Zn2+ binding site [ion binding]; other site 409026005253 Helix-turn-helix domains; Region: HTH; cl00088 409026005254 HipA N-terminal domain; Region: couple_hipA; TIGR03071 409026005255 HipA-like N-terminal domain; Region: HipA_N; pfam07805 409026005256 HipA-like C-terminal domain; Region: HipA_C; pfam07804 409026005257 Integrase core domain; Region: rve; cl01316 409026005258 Helix-turn-helix domains; Region: HTH; cl00088 409026005259 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 409026005260 Competence protein CoiA-like family; Region: CoiA; cl11541 409026005261 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 409026005262 Transposase; Region: DEDD_Tnp_IS110; pfam01548 409026005263 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 409026005264 Helix-turn-helix domains; Region: HTH; cl00088 409026005265 integrase; Provisional; Region: PRK09692 409026005266 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 409026005267 active site 409026005268 Int/Topo IB signature motif; other site 409026005269 hypothetical protein; Provisional; Region: PRK11820 409026005270 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 409026005271 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 409026005272 ribonuclease PH; Reviewed; Region: rph; PRK00173 409026005273 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 409026005274 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 409026005275 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 409026005276 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 409026005277 GTP cyclohydrolase I; Provisional; Region: PLN03044 409026005278 active site 409026005279 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 409026005280 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 409026005281 division inhibitor protein; Provisional; Region: slmA; PRK09480 409026005282 Helix-turn-helix domains; Region: HTH; cl00088 409026005283 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 409026005284 trimer interface [polypeptide binding]; other site 409026005285 active site 409026005286 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 409026005287 Flavoprotein; Region: Flavoprotein; cl08021 409026005288 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 409026005289 hypothetical protein; Reviewed; Region: PRK00024 409026005290 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 409026005291 MPN+ (JAMM) motif; other site 409026005292 Zinc-binding site [ion binding]; other site 409026005293 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 409026005294 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 409026005295 N-acetylglutamate synthase; Validated; Region: PRK05279 409026005296 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 409026005297 putative feedback inhibition sensing region; other site 409026005298 putative nucleotide binding site [chemical binding]; other site 409026005299 putative substrate binding site [chemical binding]; other site 409026005300 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 409026005301 Coenzyme A binding pocket [chemical binding]; other site 409026005302 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 409026005303 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 409026005304 CoenzymeA binding site [chemical binding]; other site 409026005305 subunit interaction site [polypeptide binding]; other site 409026005306 PHB binding site; other site 409026005307 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 409026005308 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 409026005309 ATP binding site [chemical binding]; other site 409026005310 putative Mg++ binding site [ion binding]; other site 409026005311 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 409026005312 nucleotide binding region [chemical binding]; other site 409026005313 ATP-binding site [chemical binding]; other site 409026005314 RQC domain; Region: RQC; cl09632 409026005315 HRDC domain; Region: HRDC; cl02578 409026005316 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026005317 metal binding site [ion binding]; metal-binding site 409026005318 active site 409026005319 I-site; other site 409026005320 2-isopropylmalate synthase; Validated; Region: PRK00915 409026005321 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 409026005322 active site 409026005323 catalytic residues [active] 409026005324 metal binding site [ion binding]; metal-binding site 409026005325 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 409026005326 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 409026005327 tartrate dehydrogenase; Provisional; Region: PRK08194 409026005328 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 409026005329 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 409026005330 substrate binding site [chemical binding]; other site 409026005331 ligand binding site [chemical binding]; other site 409026005332 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 409026005333 substrate binding site [chemical binding]; other site 409026005334 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 409026005335 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 409026005336 glycerol kinase; Provisional; Region: glpK; PRK00047 409026005337 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 409026005338 N- and C-terminal domain interface [polypeptide binding]; other site 409026005339 active site 409026005340 MgATP binding site [chemical binding]; other site 409026005341 catalytic site [active] 409026005342 metal binding site [ion binding]; metal-binding site 409026005343 glycerol binding site [chemical binding]; other site 409026005344 homotetramer interface [polypeptide binding]; other site 409026005345 homodimer interface [polypeptide binding]; other site 409026005346 FBP binding site [chemical binding]; other site 409026005347 protein IIAGlc interface [polypeptide binding]; other site 409026005348 cell division protein MraZ; Reviewed; Region: PRK00326 409026005349 MraZ protein; Region: MraZ; pfam02381 409026005350 MraZ protein; Region: MraZ; pfam02381 409026005351 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 409026005352 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 409026005353 Septum formation initiator; Region: DivIC; cl11433 409026005354 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 409026005355 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 409026005356 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 409026005357 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 409026005358 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 409026005359 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 409026005360 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 409026005361 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 409026005362 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 409026005363 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 409026005364 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 409026005365 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 409026005366 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 409026005367 Mg++ binding site [ion binding]; other site 409026005368 putative catalytic motif [active] 409026005369 putative substrate binding site [chemical binding]; other site 409026005370 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 409026005371 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 409026005372 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 409026005373 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 409026005374 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 409026005375 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 409026005376 active site 409026005377 homodimer interface [polypeptide binding]; other site 409026005378 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 409026005379 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 409026005380 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 409026005381 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 409026005382 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 409026005383 Cell division protein FtsQ; Region: FtsQ; pfam03799 409026005384 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 409026005385 Cell division protein FtsA; Region: FtsA; cl11496 409026005386 Cell division protein FtsA; Region: FtsA; cl11496 409026005387 cell division protein FtsZ; Validated; Region: PRK09330 409026005388 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 409026005389 nucleotide binding site [chemical binding]; other site 409026005390 SulA interaction site; other site 409026005391 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 409026005392 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 409026005393 Protein of unknown function (DUF721); Region: DUF721; cl02324 409026005394 Peptidase family M23; Region: Peptidase_M23; pfam01551 409026005395 preprotein translocase subunit SecA; Reviewed; Region: PRK13107 409026005396 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 409026005397 SEC-C motif; Region: SEC-C; pfam02810 409026005398 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 409026005399 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 409026005400 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 409026005401 Protein of unknown function (DUF3135); Region: DUF3135; pfam11333 409026005402 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 409026005403 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 409026005404 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 409026005405 Zn2+ binding site [ion binding]; other site 409026005406 Mg2+ binding site [ion binding]; other site 409026005407 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 409026005408 sensor protein PhoQ; Provisional; Region: PRK10815 409026005409 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 409026005410 ATP binding site [chemical binding]; other site 409026005411 Mg2+ binding site [ion binding]; other site 409026005412 G-X-G motif; other site 409026005413 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 409026005414 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 409026005415 active site 409026005416 phosphorylation site [posttranslational modification] 409026005417 intermolecular recognition site; other site 409026005418 dimerization interface [polypeptide binding]; other site 409026005419 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 409026005420 DNA binding site [nucleotide binding] 409026005421 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 409026005422 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 409026005423 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 409026005424 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026005425 Walker A/P-loop; other site 409026005426 ATP binding site [chemical binding]; other site 409026005427 Q-loop/lid; other site 409026005428 ABC transporter signature motif; other site 409026005429 Walker B; other site 409026005430 D-loop; other site 409026005431 H-loop/switch region; other site 409026005432 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 409026005433 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 409026005434 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 409026005435 sensory histidine kinase AtoS; Provisional; Region: PRK11360 409026005436 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 409026005437 ATP binding site [chemical binding]; other site 409026005438 Mg2+ binding site [ion binding]; other site 409026005439 G-X-G motif; other site 409026005440 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 409026005441 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 409026005442 active site 409026005443 phosphorylation site [posttranslational modification] 409026005444 intermolecular recognition site; other site 409026005445 dimerization interface [polypeptide binding]; other site 409026005446 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026005447 Walker A motif; other site 409026005448 ATP binding site [chemical binding]; other site 409026005449 Walker B motif; other site 409026005450 arginine finger; other site 409026005451 Helix-turn-helix domains; Region: HTH; cl00088 409026005452 LysE type translocator; Region: LysE; cl00565 409026005453 Cupin domain; Region: Cupin_2; cl09118 409026005454 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 409026005455 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 409026005456 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 409026005457 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 409026005458 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 409026005459 homodimer interface [polypeptide binding]; other site 409026005460 NAD binding pocket [chemical binding]; other site 409026005461 ATP binding pocket [chemical binding]; other site 409026005462 Mg binding site [ion binding]; other site 409026005463 active-site loop [active] 409026005464 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 409026005465 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 409026005466 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 409026005467 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 409026005468 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026005469 metal binding site [ion binding]; metal-binding site 409026005470 active site 409026005471 I-site; other site 409026005472 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 409026005473 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 409026005474 Sulfatase; Region: Sulfatase; cl10460 409026005475 Protein of unknown function (DUF1414); Region: DUF1414; cl01175 409026005476 Nucleoid-associated protein [General function prediction only]; Region: COG3081 409026005477 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 409026005478 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 409026005479 Peptidase family M23; Region: Peptidase_M23; pfam01551 409026005480 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 409026005481 ComEC family competence protein; Provisional; Region: PRK11539 409026005482 Competence protein; Region: Competence; cl00471 409026005483 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 409026005484 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 409026005485 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 409026005486 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 409026005487 Walker A/P-loop; other site 409026005488 ATP binding site [chemical binding]; other site 409026005489 Q-loop/lid; other site 409026005490 ABC transporter signature motif; other site 409026005491 Walker B; other site 409026005492 D-loop; other site 409026005493 H-loop/switch region; other site 409026005494 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 409026005495 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 409026005496 Trm112p-like protein; Region: Trm112p; cl01066 409026005497 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 409026005498 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 409026005499 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 409026005500 active site 409026005501 Zn binding site [ion binding]; other site 409026005502 hypothetical protein; Provisional; Region: PRK06156 409026005503 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 409026005504 active site 409026005505 metal binding site [ion binding]; metal-binding site 409026005506 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 409026005507 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 409026005508 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 409026005509 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 409026005510 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 409026005511 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 409026005512 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 409026005513 ribonuclease D; Provisional; Region: PRK10829 409026005514 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 409026005515 putative active site [active] 409026005516 catalytic site [active] 409026005517 putative substrate binding site [chemical binding]; other site 409026005518 HRDC domain; Region: HRDC; cl02578 409026005519 Septum formation topological specificity factor MinE; Region: MinE; cl00538 409026005520 cell division inhibitor MinD; Provisional; Region: PRK10818 409026005521 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 409026005522 Switch I; other site 409026005523 Switch II; other site 409026005524 septum formation inhibitor; Reviewed; Region: minC; PRK04804 409026005525 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 409026005526 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 409026005527 YcgL domain; Region: YcgL; cl01189 409026005528 lytic murein transglycosylase; Region: MltB_2; TIGR02283 409026005529 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 409026005530 N-acetyl-D-glucosamine binding site [chemical binding]; other site 409026005531 Flagellin N-methylase; Region: FliB; cl00497 409026005532 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 409026005533 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 409026005534 N-acetyl-D-glucosamine binding site [chemical binding]; other site 409026005535 catalytic residue [active] 409026005536 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; cd00118 409026005537 putative peptidoglycan binding site; other site 409026005538 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; cd00118 409026005539 putative peptidoglycan binding site; other site 409026005540 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 409026005541 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; cd00118 409026005542 putative peptidoglycan binding site; other site 409026005543 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 409026005544 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 409026005545 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 409026005546 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 409026005547 Helix-turn-helix domains; Region: HTH; cl00088 409026005548 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 409026005549 putative dimerization interface [polypeptide binding]; other site 409026005550 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 409026005551 RNA/DNA hybrid binding site [nucleotide binding]; other site 409026005552 active site 409026005553 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 409026005554 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 409026005555 active site 409026005556 substrate binding site [chemical binding]; other site 409026005557 catalytic site [active] 409026005558 TIGR03503 family protein; Region: TIGR03503 409026005559 DHH family; Region: DHH; pfam01368 409026005560 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 409026005561 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 409026005562 DNA binding residues [nucleotide binding] 409026005563 dimer interface [polypeptide binding]; other site 409026005564 [2Fe-2S] cluster binding site [ion binding]; other site 409026005565 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 409026005566 multidrug efflux protein; Reviewed; Region: PRK09579 409026005567 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 409026005568 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026005569 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 409026005570 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 409026005571 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 409026005572 active site 409026005573 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 409026005574 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 409026005575 putative active site [active] 409026005576 putative dimer interface [polypeptide binding]; other site 409026005577 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 409026005578 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 409026005579 active site 409026005580 phosphorylation site [posttranslational modification] 409026005581 intermolecular recognition site; other site 409026005582 dimerization interface [polypeptide binding]; other site 409026005583 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 409026005584 Zn2+ binding site [ion binding]; other site 409026005585 Mg2+ binding site [ion binding]; other site 409026005586 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 409026005587 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 409026005588 substrate binding pocket [chemical binding]; other site 409026005589 membrane-bound complex binding site; other site 409026005590 hinge residues; other site 409026005591 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 409026005592 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 409026005593 putative active site [active] 409026005594 heme pocket [chemical binding]; other site 409026005595 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 409026005596 dimer interface [polypeptide binding]; other site 409026005597 phosphorylation site [posttranslational modification] 409026005598 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 409026005599 ATP binding site [chemical binding]; other site 409026005600 Mg2+ binding site [ion binding]; other site 409026005601 G-X-G motif; other site 409026005602 Response regulator receiver domain; Region: Response_reg; pfam00072 409026005603 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 409026005604 active site 409026005605 phosphorylation site [posttranslational modification] 409026005606 intermolecular recognition site; other site 409026005607 dimerization interface [polypeptide binding]; other site 409026005608 Response regulator receiver domain; Region: Response_reg; pfam00072 409026005609 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 409026005610 active site 409026005611 phosphorylation site [posttranslational modification] 409026005612 intermolecular recognition site; other site 409026005613 dimerization interface [polypeptide binding]; other site 409026005614 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 409026005615 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 409026005616 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 409026005617 active site 409026005618 DNA binding site [nucleotide binding] 409026005619 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 409026005620 putative substrate translocation pore; other site 409026005621 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 409026005622 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 409026005623 active site 409026005624 catalytic residues [active] 409026005625 metal binding site [ion binding]; metal-binding site 409026005626 Cell division inhibitor SulA; Region: SulA; cl01880 409026005627 DNA Polymerase Y-family; Region: PolY_like; cd03468 409026005628 active site 409026005629 DNA binding site [nucleotide binding] 409026005630 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 409026005631 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 409026005632 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 409026005633 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 409026005634 generic binding surface II; other site 409026005635 generic binding surface I; other site 409026005636 DTW domain; Region: DTW; cl01221 409026005637 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 409026005638 Haemolysin-III related; Region: HlyIII; cl03831 409026005639 ThiC family; Region: ThiC; cl08031 409026005640 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 409026005641 dimer interface [polypeptide binding]; other site 409026005642 substrate binding site [chemical binding]; other site 409026005643 ATP binding site [chemical binding]; other site 409026005644 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 409026005645 active site 409026005646 thiamine phosphate binding site [chemical binding]; other site 409026005647 pyrophosphate binding site [ion binding]; other site 409026005648 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 409026005649 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 409026005650 ATP binding site [chemical binding]; other site 409026005651 substrate interface [chemical binding]; other site 409026005652 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 409026005653 thiS-thiF/thiG interaction site; other site 409026005654 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 409026005655 ThiS interaction site; other site 409026005656 putative active site [active] 409026005657 tetramer interface [polypeptide binding]; other site 409026005658 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 409026005659 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 409026005660 FeS/SAM binding site; other site 409026005661 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 409026005662 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 409026005663 Coenzyme A binding pocket [chemical binding]; other site 409026005664 Response regulator receiver domain; Region: Response_reg; pfam00072 409026005665 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 409026005666 active site 409026005667 phosphorylation site [posttranslational modification] 409026005668 intermolecular recognition site; other site 409026005669 dimerization interface [polypeptide binding]; other site 409026005670 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026005671 Helix-turn-helix domains; Region: HTH; cl00088 409026005672 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 409026005673 dimerization interface [polypeptide binding]; other site 409026005674 Domain of unknown function (DUF3541); Region: DUF3541; pfam12060 409026005675 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 409026005676 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 409026005677 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 409026005678 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 409026005679 Protein of unknown function (DUF785); Region: DUF785; cl01682 409026005680 tRNA mo(5)U34 methyltransferase; Provisional; Region: PRK15068 409026005681 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 409026005682 S-adenosylmethionine binding site [chemical binding]; other site 409026005683 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 409026005684 S-adenosylmethionine binding site [chemical binding]; other site 409026005685 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 409026005686 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 409026005687 substrate binding pocket [chemical binding]; other site 409026005688 membrane-bound complex binding site; other site 409026005689 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 409026005690 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 409026005691 substrate binding pocket [chemical binding]; other site 409026005692 membrane-bound complex binding site; other site 409026005693 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 409026005694 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 409026005695 substrate binding pocket [chemical binding]; other site 409026005696 membrane-bound complex binding site; other site 409026005697 hinge residues; other site 409026005698 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026005699 metal binding site [ion binding]; metal-binding site 409026005700 active site 409026005701 I-site; other site 409026005702 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 409026005703 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 409026005704 dimer interface [polypeptide binding]; other site 409026005705 anticodon binding site; other site 409026005706 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 409026005707 homodimer interface [polypeptide binding]; other site 409026005708 motif 1; other site 409026005709 active site 409026005710 motif 2; other site 409026005711 GAD domain; Region: GAD; pfam02938 409026005712 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 attaches...; Region: class_II_aaRS-like_core; cl00268 409026005713 active site 409026005714 motif 3; other site 409026005715 Domain of unknown function DUF28; Region: DUF28; cl00361 409026005716 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 409026005717 active site 409026005718 putative DNA-binding cleft [nucleotide binding]; other site 409026005719 dimer interface [polypeptide binding]; other site 409026005720 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 409026005721 RuvA N terminal domain; Region: RuvA_N; pfam01330 409026005722 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 409026005723 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 409026005724 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 409026005725 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026005726 Walker A motif; other site 409026005727 ATP binding site [chemical binding]; other site 409026005728 Walker B motif; other site 409026005729 arginine finger; other site 409026005730 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 409026005731 Domain of unknown function (DUF4402); Region: DUF4402; pfam14352 409026005732 Domain of unknown function (DUF4402); Region: DUF4402; pfam14352 409026005733 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 409026005734 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 409026005735 N-terminal plug; other site 409026005736 ligand-binding site [chemical binding]; other site 409026005737 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 409026005738 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 409026005739 dimer interface [polypeptide binding]; other site 409026005740 active site 409026005741 metal binding site [ion binding]; metal-binding site 409026005742 glutathione binding site [chemical binding]; other site 409026005743 endonuclease III; Provisional; Region: PRK10702 409026005744 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 409026005745 minor groove reading motif; other site 409026005746 helix-hairpin-helix signature motif; other site 409026005747 substrate binding pocket [chemical binding]; other site 409026005748 active site 409026005749 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 409026005750 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 409026005751 FMN-binding domain; Region: FMN_bind; cl01081 409026005752 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 409026005753 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 409026005754 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 409026005755 SLBB domain; Region: SLBB; pfam10531 409026005756 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 409026005757 electron transport complex protein RnfB; Provisional; Region: PRK05113 409026005758 Putative Fe-S cluster; Region: FeS; pfam04060 409026005759 4Fe-4S binding domain; Region: Fer4; cl02805 409026005760 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 409026005761 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026005762 active site 409026005763 I-site; other site 409026005764 metal binding site [ion binding]; metal-binding site 409026005765 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 409026005766 excinuclease ABC subunit B; Provisional; Region: PRK05298 409026005767 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 409026005768 ATP binding site [chemical binding]; other site 409026005769 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 409026005770 nucleotide binding region [chemical binding]; other site 409026005771 ATP-binding site [chemical binding]; other site 409026005772 Ultra-violet resistance protein B; Region: UvrB; pfam12344 409026005773 UvrB/uvrC motif; Region: UVR; pfam02151 409026005774 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 409026005775 Ligand Binding Site [chemical binding]; other site 409026005776 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 409026005777 Ribosomal S4P (gammaproteobacterial); Region: Ribosomal_S4Pg; pfam11993 409026005778 Protein of unknown function (DUF406); Region: DUF406; cl11449 409026005779 GAF domain; Region: GAF; cl00853 409026005780 PAS domain S-box; Region: sensory_box; TIGR00229 409026005781 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 409026005782 putative active site [active] 409026005783 heme pocket [chemical binding]; other site 409026005784 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026005785 metal binding site [ion binding]; metal-binding site 409026005786 active site 409026005787 I-site; other site 409026005788 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 409026005789 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 409026005790 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 409026005791 Smr domain; Region: Smr; cl02619 409026005792 Angiotensin-converting enzyme; Region: Peptidase_M2; pfam01401 409026005793 Peptidase family M2 Angiotensin converting enzyme (ACE); Region: M2_ACE; cd06461 409026005794 active site 409026005795 Zn binding site [ion binding]; other site 409026005796 Helix-turn-helix domains; Region: HTH; cl00088 409026005797 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 409026005798 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 409026005799 active site 409026005800 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 409026005801 pyruvate kinase; Provisional; Region: PRK05826 409026005802 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 409026005803 domain interfaces; other site 409026005804 active site 409026005805 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 409026005806 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 409026005807 putative active site [active] 409026005808 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 409026005809 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 409026005810 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 409026005811 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 409026005812 putative active site [active] 409026005813 Dehydratase family; Region: ILVD_EDD; cl00340 409026005814 6-phosphogluconate dehydratase; Region: edd; TIGR01196 409026005815 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 409026005816 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 409026005817 active site 409026005818 intersubunit interface [polypeptide binding]; other site 409026005819 catalytic residue [active] 409026005820 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cl00178 409026005821 secondary substrate binding site; other site 409026005822 primary substrate binding site; other site 409026005823 inhibition loop; other site 409026005824 Cation efflux family; Region: Cation_efflux; cl00316 409026005825 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 409026005826 Helix-turn-helix domains; Region: HTH; cl00088 409026005827 putative metal dependent hydrolase; Provisional; Region: PRK11598 409026005828 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 409026005829 Sulfatase; Region: Sulfatase; cl10460 409026005830 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026005831 metal binding site [ion binding]; metal-binding site 409026005832 active site 409026005833 I-site; other site 409026005834 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 409026005835 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026005836 MoxR-like ATPases [General function prediction only]; Region: COG0714 409026005837 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026005838 Walker A motif; other site 409026005839 ATP binding site [chemical binding]; other site 409026005840 Walker B motif; other site 409026005841 arginine finger; other site 409026005842 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026005843 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 409026005844 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 409026005845 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 409026005846 VWA BatA type: 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...; Region: vWA_BatA_type; cd01467 409026005847 metal ion-dependent adhesion site (MIDAS); other site 409026005848 hypothetical protein; Provisional; Region: PRK13685 409026005849 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 409026005850 metal ion-dependent adhesion site (MIDAS); other site 409026005851 Oxygen tolerance; Region: BatD; pfam13584 409026005852 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 409026005853 folate binding site [chemical binding]; other site 409026005854 NADP+ binding site [chemical binding]; other site 409026005855 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 409026005856 Helix-turn-helix domains; Region: HTH; cl00088 409026005857 RecX family; Region: RecX; cl00936 409026005858 RecX family; Region: RecX; cl00936 409026005859 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 409026005860 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 409026005861 FeS/SAM binding site; other site 409026005862 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; cl14869 409026005863 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 409026005864 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 409026005865 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 409026005866 binding surface 409026005867 TPR motif; other site 409026005868 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 409026005869 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 409026005870 active site 409026005871 phosphorylation site [posttranslational modification] 409026005872 intermolecular recognition site; other site 409026005873 dimerization interface [polypeptide binding]; other site 409026005874 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 409026005875 DNA binding residues [nucleotide binding] 409026005876 dimerization interface [polypeptide binding]; other site 409026005877 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 409026005878 Histidine kinase; Region: HisKA_3; pfam07730 409026005879 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 409026005880 ATP binding site [chemical binding]; other site 409026005881 Mg2+ binding site [ion binding]; other site 409026005882 G-X-G motif; other site 409026005883 Sulfatase; Region: Sulfatase; cl10460 409026005884 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 409026005885 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 409026005886 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026005887 Helix-turn-helix domains; Region: HTH; cl00088 409026005888 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 409026005889 dimerization interface [polypeptide binding]; other site 409026005890 putative effector binding pocket; other site 409026005891 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 409026005892 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 409026005893 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 409026005894 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 409026005895 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 409026005896 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 409026005897 Transcriptional regulators [Transcription]; Region: GntR; COG1802 409026005898 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 409026005899 DNA-binding site [nucleotide binding]; DNA binding site 409026005900 FCD domain; Region: FCD; cl11656 409026005901 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 409026005902 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 409026005903 tetramer interface [polypeptide binding]; other site 409026005904 active site 409026005905 Mg2+/Mn2+ binding site [ion binding]; other site 409026005906 Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes...; Region: Ec2MCS_like; cd06108 409026005907 dimer interface [polypeptide binding]; other site 409026005908 Citrate synthase; Region: Citrate_synt; pfam00285 409026005909 active site 409026005910 citrylCoA binding site [chemical binding]; other site 409026005911 oxalacetate/citrate binding site [chemical binding]; other site 409026005912 coenzyme A binding site [chemical binding]; other site 409026005913 catalytic triad [active] 409026005914 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 409026005915 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 409026005916 substrate binding site [chemical binding]; other site 409026005917 ligand binding site [chemical binding]; other site 409026005918 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 409026005919 substrate binding site [chemical binding]; other site 409026005920 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 409026005921 PrpF protein; Region: PrpF; pfam04303 409026005922 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 409026005923 NAD(P) binding site [chemical binding]; other site 409026005924 catalytic residues [active] 409026005925 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 409026005926 Flagellin N-methylase; Region: FliB; cl00497 409026005927 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 409026005928 Fusaric acid resistance protein family; Region: FUSC; pfam04632 409026005929 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 409026005930 Transposase; Region: DEDD_Tnp_IS110; pfam01548 409026005931 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 409026005932 Fusaric acid resistance protein family; Region: FUSC; pfam04632 409026005933 Predicted integral membrane protein (DUF2270); Region: DUF2270; cl02337 409026005934 TIGR03549 family protein; Region: TIGR03549 409026005935 OsmC-like protein; Region: OsmC; cl00767 409026005936 YcaO-like family; Region: YcaO; cl09146 409026005937 A new structural DNA glycosylase; Region: AlkD_like; cd06561 409026005938 active site 409026005939 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 409026005940 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026005941 Walker A/P-loop; other site 409026005942 ATP binding site [chemical binding]; other site 409026005943 Q-loop/lid; other site 409026005944 ABC transporter signature motif; other site 409026005945 Walker B; other site 409026005946 D-loop; other site 409026005947 H-loop/switch region; other site 409026005948 ABC transporter; Region: ABC_tran_2; pfam12848 409026005949 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 facilitated...; Region: ABCF_EF-3; cd03221 409026005950 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 409026005951 Sulfatase; Region: Sulfatase; cl10460 409026005952 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 409026005953 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 409026005954 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 409026005955 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 409026005956 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 409026005957 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 409026005958 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 409026005959 homodimer interface [polypeptide binding]; other site 409026005960 substrate-cofactor binding pocket; other site 409026005961 pyridoxal 5'-phosphate binding site [chemical binding]; other site 409026005962 catalytic residue [active] 409026005963 galactokinase; Provisional; Region: PRK05101 409026005964 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 409026005965 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 409026005966 multidrug efflux protein; Reviewed; Region: PRK01766 409026005967 MatE; Region: MatE; cl10513 409026005968 MatE; Region: MatE; cl10513 409026005969 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 409026005970 Lumazine binding domain; Region: Lum_binding; pfam00677 409026005971 Lumazine binding domain; Region: Lum_binding; pfam00677 409026005972 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 409026005973 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 409026005974 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026005975 NAD(P) binding site [chemical binding]; other site 409026005976 active site 409026005977 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 409026005978 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 409026005979 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 409026005980 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 409026005981 active site 409026005982 dimer interface [polypeptide binding]; other site 409026005983 motif 1; other site 409026005984 motif 2; other site 409026005985 motif 3; other site 409026005986 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 409026005987 anticodon binding site; other site 409026005988 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 409026005989 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 409026005990 ribosomal protein L20; Region: rpl20; CHL00068 409026005991 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 409026005992 23S rRNA binding site [nucleotide binding]; other site 409026005993 L21 binding site [polypeptide binding]; other site 409026005994 L13 binding site [polypeptide binding]; other site 409026005995 thioredoxin reductase; Provisional; Region: PRK10262 409026005996 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026005997 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 409026005998 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 409026005999 putative active site [active] 409026006000 Zn binding site [ion binding]; other site 409026006001 Uncharacterised protein family UPF0547; Region: UPF0547; pfam10571 409026006002 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 409026006003 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 409026006004 active site 409026006005 homodimer interface [polypeptide binding]; other site 409026006006 protease 4; Provisional; Region: PRK10949 409026006007 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 409026006008 tandem repeat interface [polypeptide binding]; other site 409026006009 oligomer interface [polypeptide binding]; other site 409026006010 active site residues [active] 409026006011 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 409026006012 tandem repeat interface [polypeptide binding]; other site 409026006013 oligomer interface [polypeptide binding]; other site 409026006014 active site residues [active] 409026006015 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 409026006016 active site 409026006017 FMN binding site [chemical binding]; other site 409026006018 2,4-decadienoyl-CoA binding site; other site 409026006019 catalytic residue [active] 409026006020 4Fe-4S cluster binding site [ion binding]; other site 409026006021 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026006022 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 409026006023 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 409026006024 Transposase; Region: DEDD_Tnp_IS110; pfam01548 409026006025 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 409026006026 YCII-related domain; Region: YCII; cl00999 409026006027 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 409026006028 catalytic loop [active] 409026006029 iron binding site [ion binding]; other site 409026006030 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 409026006031 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 409026006032 dimer interface [polypeptide binding]; other site 409026006033 putative radical transfer pathway; other site 409026006034 diiron center [ion binding]; other site 409026006035 tyrosyl radical; other site 409026006036 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 409026006037 ATP cone domain; Region: ATP-cone; pfam03477 409026006038 Class I ribonucleotide reductase; Region: RNR_I; cd01679 409026006039 active site 409026006040 dimer interface [polypeptide binding]; other site 409026006041 catalytic residues [active] 409026006042 effector binding site; other site 409026006043 R2 peptide binding site; other site 409026006044 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 409026006045 motif II; other site 409026006046 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 409026006047 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 409026006048 S-adenosylmethionine binding site [chemical binding]; other site 409026006049 DNA gyrase subunit A; Validated; Region: PRK05560 409026006050 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 DNA...; Region: TOP4c; cd00187 409026006051 CAP-like domain; other site 409026006052 active site 409026006053 primary dimer interface [polypeptide binding]; other site 409026006054 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 409026006055 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 409026006056 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 409026006057 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 409026006058 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 409026006059 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 409026006060 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 409026006061 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 409026006062 Aminotransferase class-V; Region: Aminotran_5; pfam00266 409026006063 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 409026006064 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 409026006065 catalytic residue [active] 409026006066 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 409026006067 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 409026006068 pyridoxal 5'-phosphate binding site [chemical binding]; other site 409026006069 homodimer interface [polypeptide binding]; other site 409026006070 catalytic residue [active] 409026006071 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 409026006072 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 409026006073 hinge; other site 409026006074 active site 409026006075 cytidylate kinase; Provisional; Region: cmk; PRK00023 409026006076 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 409026006077 CMP-binding site; other site 409026006078 The sites determining sugar specificity; other site 409026006079 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 409026006080 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 409026006081 RNA binding site [nucleotide binding]; other site 409026006082 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 409026006083 RNA binding site [nucleotide binding]; other site 409026006084 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 409026006085 RNA binding site [nucleotide binding]; other site 409026006086 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 409026006087 RNA binding site [nucleotide binding]; other site 409026006088 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 409026006089 RNA binding site [nucleotide binding]; other site 409026006090 S1_RPS1_repeat_ec6: 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_ec6; cd05691 409026006091 RNA binding site [nucleotide binding]; other site 409026006092 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 409026006093 IHF dimer interface [polypeptide binding]; other site 409026006094 IHF - DNA interface [nucleotide binding]; other site 409026006095 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 409026006096 tetratricopeptide repeat protein; Provisional; Region: PRK11788 409026006097 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026006098 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 409026006099 active site 409026006100 dimer interface [polypeptide binding]; other site 409026006101 short chain dehydrogenase; Provisional; Region: PRK07576 409026006102 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 409026006103 NAD(P) binding site [chemical binding]; other site 409026006104 substrate binding site [chemical binding]; other site 409026006105 homotetramer interface [polypeptide binding]; other site 409026006106 active site 409026006107 homodimer interface [polypeptide binding]; other site 409026006108 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; cl01201 409026006109 FAD binding domain; Region: FAD_binding_4; pfam01565 409026006110 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 409026006111 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 409026006112 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 409026006113 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 409026006114 active site 409026006115 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 409026006116 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl15297 409026006117 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 409026006118 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 409026006119 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 409026006120 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 409026006121 domain interface [polypeptide binding]; other site 409026006122 putative active site [active] 409026006123 catalytic site [active] 409026006124 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 409026006125 domain interface [polypeptide binding]; other site 409026006126 putative active site [active] 409026006127 catalytic site [active] 409026006128 DTW domain; Region: DTW; cl01221 409026006129 Helix-turn-helix domains; Region: HTH; cl00088 409026006130 Helix-turn-helix domains; Region: HTH; cl00088 409026006131 putative transposase OrfB; Reviewed; Region: PHA02517 409026006132 Integrase core domain; Region: rve; cl01316 409026006133 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 409026006134 active site 409026006135 phosphorylation site [posttranslational modification] 409026006136 intermolecular recognition site; other site 409026006137 RNA polymerase sigma factor RpoD; Validated; Region: PRK07406 409026006138 dimerization interface [polypeptide binding]; other site 409026006139 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 409026006140 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 409026006141 dimer interface [polypeptide binding]; other site 409026006142 phosphorylation site [posttranslational modification] 409026006143 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 409026006144 ATP binding site [chemical binding]; other site 409026006145 Mg2+ binding site [ion binding]; other site 409026006146 G-X-G motif; other site 409026006147 ApbE family; Region: ApbE; cl00643 409026006148 FMN-binding domain; Region: FMN_bind; cl01081 409026006149 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 409026006150 eyelet of channel; other site 409026006151 trimer interface [polypeptide binding]; other site 409026006152 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 and...; Region: PseudoU_synth_RluCD_like; cd02869 409026006153 active site 409026006154 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 409026006155 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 409026006156 Zn binding site [ion binding]; other site 409026006157 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 409026006158 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 409026006159 active site 409026006160 metal binding site [ion binding]; metal-binding site 409026006161 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 409026006162 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 409026006163 DNA binding site [nucleotide binding] 409026006164 dimer interface [polypeptide binding]; other site 409026006165 Phage integrase family; Region: Phage_integrase; pfam00589 409026006166 Int/Topo IB signature motif; other site 409026006167 active site 409026006168 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 409026006169 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 409026006170 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 409026006171 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cl15691 409026006172 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 409026006173 Zn binding site [ion binding]; other site 409026006174 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026006175 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 409026006176 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 409026006177 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 409026006178 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 409026006179 Protein of unknown function (DUF2989); Region: DUF2989; pfam11207 409026006180 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 409026006181 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 409026006182 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 409026006183 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 409026006184 DsrC like protein; Region: DsrC; cl01101 409026006185 DsrE/DsrF-like family; Region: DrsE; cl00672 409026006186 DsrE/DsrF-like family; Region: DrsE; cl00672 409026006187 DsrE/DsrF-like family; Region: DrsE; cl00672 409026006188 YccA-like proteins; Region: YccA_like; cd10433 409026006189 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 409026006190 Helix-turn-helix domains; Region: HTH; cl00088 409026006191 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 409026006192 dimerization interface [polypeptide binding]; other site 409026006193 putative transporter; Provisional; Region: PRK11043 409026006194 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 409026006195 putative substrate translocation pore; other site 409026006196 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 409026006197 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 409026006198 SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Region: SWIM_PBPRA1643; TIGR04102 409026006199 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 409026006200 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 409026006201 DHHA2 domain; Region: DHHA2; pfam02833 409026006202 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 409026006203 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 409026006204 Peptidase family U32; Region: Peptidase_U32; cl03113 409026006205 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 409026006206 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 409026006207 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 409026006208 Helix-turn-helix domain; Region: HTH_18; pfam12833 409026006209 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 409026006210 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 409026006211 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 409026006212 NAD binding site [chemical binding]; other site 409026006213 substrate binding site [chemical binding]; other site 409026006214 putative active site [active] 409026006215 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026006216 Helix-turn-helix domains; Region: HTH; cl00088 409026006217 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 409026006218 putative effector binding pocket; other site 409026006219 dimerization interface [polypeptide binding]; other site 409026006220 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 409026006221 non-specific DNA binding site [nucleotide binding]; other site 409026006222 salt bridge; other site 409026006223 sequence-specific DNA binding site [nucleotide binding]; other site 409026006224 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 409026006225 putative major coat protein; Region: PHA00979 409026006226 Protein of unknown function (DUF2523); Region: DUF2523; cl10291 409026006227 putative assembly protein; Region: PHA00350 409026006228 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026006229 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 409026006230 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 409026006231 Int/Topo IB signature motif; other site 409026006232 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 409026006233 Low-spin heme binding site [chemical binding]; other site 409026006234 Putative water exit pathway; other site 409026006235 Binuclear center (active site) [active] 409026006236 Putative proton exit pathway; other site 409026006237 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 409026006238 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 409026006239 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 409026006240 Cytochrome c; Region: Cytochrom_C; cl11414 409026006241 Cytochrome c; Region: Cytochrom_C; cl11414 409026006242 FixH; Region: FixH; cl01254 409026006243 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 409026006244 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 409026006245 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 409026006246 metal-binding site [ion binding] 409026006247 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 409026006248 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 409026006249 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 409026006250 LysE type translocator; Region: LysE; cl00565 409026006251 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 409026006252 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 409026006253 ligand binding site [chemical binding]; other site 409026006254 flexible hinge region; other site 409026006255 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 409026006256 putative switch regulator; other site 409026006257 non-specific DNA interactions [nucleotide binding]; other site 409026006258 DNA binding site [nucleotide binding] 409026006259 sequence specific DNA binding site [nucleotide binding]; other site 409026006260 putative cAMP binding site [chemical binding]; other site 409026006261 universal stress protein UspE; Provisional; Region: PRK11175 409026006262 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 409026006263 Ligand Binding Site [chemical binding]; other site 409026006264 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 409026006265 Ligand Binding Site [chemical binding]; other site 409026006266 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 409026006267 Ligand Binding Site [chemical binding]; other site 409026006268 Protein of unknown function (DUF2987); Region: DUF2987; pfam11205 409026006269 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 409026006270 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 409026006271 phosphate binding site [ion binding]; other site 409026006272 putative substrate binding pocket [chemical binding]; other site 409026006273 dimer interface [polypeptide binding]; other site 409026006274 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 409026006275 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 409026006276 pyridoxal 5'-phosphate binding site [chemical binding]; other site 409026006277 homodimer interface [polypeptide binding]; other site 409026006278 catalytic residue [active] 409026006279 seryl-tRNA synthetase; Provisional; Region: PRK05431 409026006280 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 409026006281 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 bound...; Region: SerRS_core; cd00770 409026006282 dimer interface [polypeptide binding]; other site 409026006283 active site 409026006284 motif 1; other site 409026006285 motif 2; other site 409026006286 motif 3; other site 409026006287 CrcB-like protein; Region: CRCB; cl09114 409026006288 recombination factor protein RarA; Reviewed; Region: PRK13342 409026006289 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026006290 Walker A motif; other site 409026006291 ATP binding site [chemical binding]; other site 409026006292 Walker B motif; other site 409026006293 arginine finger; other site 409026006294 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 409026006295 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 409026006296 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 409026006297 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 409026006298 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 409026006299 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026006300 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 409026006301 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 409026006302 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 409026006303 putative DNA binding site [nucleotide binding]; other site 409026006304 putative Zn2+ binding site [ion binding]; other site 409026006305 Helix-turn-helix domains; Region: HTH; cl00088 409026006306 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 409026006307 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 409026006308 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026006309 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 409026006310 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 409026006311 active site 409026006312 phosphorylation site [posttranslational modification] 409026006313 intermolecular recognition site; other site 409026006314 dimerization interface [polypeptide binding]; other site 409026006315 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 409026006316 DNA binding site [nucleotide binding] 409026006317 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 409026006318 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 409026006319 ATP binding site [chemical binding]; other site 409026006320 putative Mg++ binding site [ion binding]; other site 409026006321 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 409026006322 nucleotide binding region [chemical binding]; other site 409026006323 ATP-binding site [chemical binding]; other site 409026006324 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 409026006325 putative catalytic site [active] 409026006326 putative metal binding site [ion binding]; other site 409026006327 putative phosphate binding site [ion binding]; other site 409026006328 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 409026006329 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 409026006330 putative active site [active] 409026006331 catalytic site [active] 409026006332 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 409026006333 putative active site [active] 409026006334 catalytic site [active] 409026006335 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 409026006336 Nitrate and nitrite sensing; Region: NIT; pfam08376 409026006337 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 409026006338 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 409026006339 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 409026006340 Quinolinate synthetase A protein; Region: NadA; cl00420 409026006341 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 409026006342 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 409026006343 E3 interaction surface; other site 409026006344 lipoyl attachment site [posttranslational modification]; other site 409026006345 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 409026006346 E3 interaction surface; other site 409026006347 lipoyl attachment site [posttranslational modification]; other site 409026006348 e3 binding domain; Region: E3_binding; pfam02817 409026006349 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 409026006350 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 409026006351 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 409026006352 alpha subunit interface [polypeptide binding]; other site 409026006353 TPP binding site [chemical binding]; other site 409026006354 heterodimer interface [polypeptide binding]; other site 409026006355 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 409026006356 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 409026006357 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 409026006358 tetramer interface [polypeptide binding]; other site 409026006359 TPP-binding site [chemical binding]; other site 409026006360 heterodimer interface [polypeptide binding]; other site 409026006361 phosphorylation loop region [posttranslational modification] 409026006362 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 409026006363 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 409026006364 putative active site [active] 409026006365 Zn binding site [ion binding]; other site 409026006366 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 409026006367 phosphoglucomutase; Validated; Region: PRK07564 409026006368 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 409026006369 active site 409026006370 substrate binding site [chemical binding]; other site 409026006371 metal binding site [ion binding]; metal-binding site 409026006372 SeqA protein; Region: SeqA; cl11470 409026006373 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 409026006374 acyl-CoA esterase; Provisional; Region: PRK10673 409026006375 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 409026006376 LexA regulated protein; Provisional; Region: PRK11675 409026006377 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 409026006378 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; cl01823 409026006379 elongation factor P; Validated; Region: PRK00529 409026006380 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 409026006381 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 409026006382 RNA binding site [nucleotide binding]; other site 409026006383 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 409026006384 RNA binding site [nucleotide binding]; other site 409026006385 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 409026006386 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 409026006387 pyridoxal 5'-phosphate binding site [chemical binding]; other site 409026006388 homodimer interface [polypeptide binding]; other site 409026006389 catalytic residue [active] 409026006390 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 409026006391 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 409026006392 MarC family integral membrane protein; Region: MarC; cl00919 409026006393 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 409026006394 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 409026006395 putative catalytic cysteine [active] 409026006396 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 409026006397 putative active site [active] 409026006398 metal binding site [ion binding]; metal-binding site 409026006399 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 409026006400 active site 409026006401 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026006402 Helix-turn-helix domains; Region: HTH; cl00088 409026006403 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 409026006404 substrate binding pocket [chemical binding]; other site 409026006405 dimerization interface [polypeptide binding]; other site 409026006406 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 409026006407 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 409026006408 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 409026006409 tetramer interface [polypeptide binding]; other site 409026006410 active site 409026006411 Mg2+/Mn2+ binding site [ion binding]; other site 409026006412 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 409026006413 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 409026006414 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 409026006415 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 409026006416 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 409026006417 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 409026006418 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 409026006419 Fumarase C-terminus; Region: Fumerase_C; cl00795 409026006420 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 409026006421 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 409026006422 chorismate binding enzyme; Region: Chorismate_bind; cl10555 409026006423 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 409026006424 putative active site [active] 409026006425 putative CoA binding site [chemical binding]; other site 409026006426 nudix motif; other site 409026006427 metal binding site [ion binding]; metal-binding site 409026006428 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 409026006429 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 409026006430 putative dimer interface [polypeptide binding]; other site 409026006431 putative anticodon binding site; other site 409026006432 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 409026006433 homodimer interface [polypeptide binding]; other site 409026006434 motif 1; other site 409026006435 motif 2; other site 409026006436 active site 409026006437 motif 3; other site 409026006438 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 409026006439 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 409026006440 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 409026006441 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 409026006442 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 HybD...; Region: H2MP_MemB-H2up; cd06062 409026006443 putative substrate-binding site; other site 409026006444 nickel binding site [ion binding]; other site 409026006445 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 409026006446 Acylphosphatase; Region: Acylphosphatase; cl00551 409026006447 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 409026006448 HypF finger; Region: zf-HYPF; pfam07503 409026006449 HypF finger; Region: zf-HYPF; pfam07503 409026006450 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 409026006451 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026006452 HupF/HypC family; Region: HupF_HypC; cl00394 409026006453 Hydrogenase formation hypA family; Region: HypD; cl12072 409026006454 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 409026006455 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 409026006456 dimerization interface [polypeptide binding]; other site 409026006457 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 409026006458 ATP binding site [chemical binding]; other site 409026006459 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; cl00418 409026006460 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 409026006461 TPR motif; other site 409026006462 binding surface 409026006463 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 409026006464 TPR motif; other site 409026006465 binding surface 409026006466 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 409026006467 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 409026006468 binding surface 409026006469 TPR motif; other site 409026006470 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 409026006471 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 409026006472 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 409026006473 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 409026006474 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 to...; Region: VirB11-like_ATPase; cd01130 409026006475 ATP binding site [chemical binding]; other site 409026006476 Walker A motif; other site 409026006477 hexamer interface [polypeptide binding]; other site 409026006478 Walker B motif; other site 409026006479 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 409026006480 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026006481 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 409026006482 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 409026006483 SAF domain; Region: SAF; cl00555 409026006484 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026006485 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 409026006486 Walker A motif; other site 409026006487 ATP binding site [chemical binding]; other site 409026006488 Walker B motif; other site 409026006489 arginine finger; other site 409026006490 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 409026006491 Flp/Fap pilin component; Region: Flp_Fap; cl01585 409026006492 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 409026006493 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 409026006494 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 409026006495 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 409026006496 Sulfatase; Region: Sulfatase; cl10460 409026006497 O-Antigen ligase; Region: Wzy_C; cl04850 409026006498 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 409026006499 Uncharacterised protein family UPF0047; Region: UPF0047; cl00439 409026006500 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 409026006501 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 409026006502 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 409026006503 putative substrate translocation pore; other site 409026006504 glucose/galactose transporter; Region: gluP; TIGR01272 409026006505 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 409026006506 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 409026006507 active site 409026006508 catalytic site [active] 409026006509 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 409026006510 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026006511 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026006512 Cyclomaltodextrinase, N-terminal; Region: Cyc-maltodext_N; pfam09087 409026006513 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_3; cd11340 409026006514 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 409026006515 Ca binding site [ion binding]; other site 409026006516 active site 409026006517 homodimer interface [polypeptide binding]; other site 409026006518 catalytic site [active] 409026006519 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 409026006520 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 409026006521 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 409026006522 active site 409026006523 catalytic site [active] 409026006524 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 409026006525 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 409026006526 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 409026006527 non-specific DNA binding site [nucleotide binding]; other site 409026006528 salt bridge; other site 409026006529 sequence-specific DNA binding site [nucleotide binding]; other site 409026006530 Protein of unknown function (DUF3612); Region: DUF3612; pfam12268 409026006531 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 409026006532 putative substrate translocation pore; other site 409026006533 Glycoside hydrolase family 15, N-terminal domain; Region: GH15_N; cd07430 409026006534 Domain interface; other site 409026006535 glucan 1,4-alpha-glucosidase; Region: glucan_glucosid; TIGR01535 409026006536 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 409026006537 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 409026006538 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 409026006539 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 409026006540 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 409026006541 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 409026006542 Uncharacterized conserved protein [Function unknown]; Region: COG2850 409026006543 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 409026006544 active site 409026006545 substrate binding site [chemical binding]; other site 409026006546 catalytic site [active] 409026006547 Cation efflux family; Region: Cation_efflux; cl00316 409026006548 Transcriptional regulators [Transcription]; Region: PurR; COG1609 409026006549 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 409026006550 DNA binding site [nucleotide binding] 409026006551 domain linker motif; other site 409026006552 Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators; Region: PBP1_CelR; cd06295 409026006553 putative dimerization interface [polypeptide binding]; other site 409026006554 putative ligand binding site [chemical binding]; other site 409026006555 Protein of unknown function (DUF3334); Region: DUF3334; pfam11813 409026006556 Cache domain; Region: Cache_2; cl07034 409026006557 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 409026006558 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 409026006559 dimerization interface [polypeptide binding]; other site 409026006560 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 409026006561 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 409026006562 Uncharacterized conserved protein [Function unknown]; Region: COG3603 409026006563 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 409026006564 dimerization domain swap beta strand [polypeptide binding]; other site 409026006565 regulatory protein interface [polypeptide binding]; other site 409026006566 active site 409026006567 regulatory phosphorylation site [posttranslational modification]; other site 409026006568 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 409026006569 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 409026006570 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 409026006571 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 409026006572 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 409026006573 HPr interaction site; other site 409026006574 glycerol kinase (GK) interaction site [polypeptide binding]; other site 409026006575 active site 409026006576 phosphorylation site [posttranslational modification] 409026006577 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 409026006578 ArsC family; Region: ArsC; pfam03960 409026006579 putative catalytic residues [active] 409026006580 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 409026006581 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 409026006582 metal binding site [ion binding]; metal-binding site 409026006583 dimer interface [polypeptide binding]; other site 409026006584 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 409026006585 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 409026006586 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_cladeA; cd00883 409026006587 active site clefts [active] 409026006588 zinc binding site [ion binding]; other site 409026006589 dimer interface [polypeptide binding]; other site 409026006590 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 409026006591 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 409026006592 inhibitor-cofactor binding pocket; inhibition site 409026006593 pyridoxal 5'-phosphate binding site [chemical binding]; other site 409026006594 catalytic residue [active] 409026006595 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 409026006596 active site 409026006597 NAD binding site [chemical binding]; other site 409026006598 metal binding site [ion binding]; metal-binding site 409026006599 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 409026006600 Ligand binding site; other site 409026006601 oligomer interface; other site 409026006602 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 409026006603 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 409026006604 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 409026006605 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 409026006606 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 409026006607 DNA binding site [nucleotide binding] 409026006608 Int/Topo IB signature motif; other site 409026006609 active site 409026006610 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 409026006611 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 409026006612 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026006613 Walker A motif; other site 409026006614 ATP binding site [chemical binding]; other site 409026006615 Walker B motif; other site 409026006616 Integrase core domain; Region: rve; cl01316 409026006617 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 409026006618 Low molecular weight phosphatase family; Region: LMWPc; cl00105 409026006619 Domain of unknown function (DUF4265); Region: DUF4265; pfam14085 409026006620 Helix-turn-helix domains; Region: HTH; cl00088 409026006621 putative transposase OrfB; Reviewed; Region: PHA02517 409026006622 Integrase core domain; Region: rve; cl01316 409026006623 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 409026006624 Domain of unknown function DUF1829; Region: DUF1829; pfam08862 409026006625 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 409026006626 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 409026006627 RHS Repeat; Region: RHS_repeat; cl11982 409026006628 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 409026006629 Protein export membrane protein; Region: SecD_SecF; cl14618 409026006630 Protein export membrane protein; Region: SecD_SecF; cl14618 409026006631 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 409026006632 lipoprotein; Provisional; Region: PRK11679 409026006633 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 409026006634 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 409026006635 dihydrodipicolinate synthase; Region: dapA; TIGR00674 409026006636 dimer interface [polypeptide binding]; other site 409026006637 active site 409026006638 catalytic residue [active] 409026006639 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 409026006640 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 409026006641 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 409026006642 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 409026006643 catalytic triad [active] 409026006644 LysE type translocator; Region: LysE; cl00565 409026006645 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 409026006646 Helix-turn-helix domains; Region: HTH; cl00088 409026006647 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 409026006648 putative dimerization interface [polypeptide binding]; other site 409026006649 Domain of unknown function DUF20; Region: UPF0118; cl00465 409026006650 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 409026006651 CPxP motif; other site 409026006652 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 409026006653 Peptidase family M48; Region: Peptidase_M48; cl12018 409026006654 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 409026006655 TPR motif; other site 409026006656 binding surface 409026006657 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 409026006658 binding surface 409026006659 TPR motif; other site 409026006660 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 409026006661 ArsC family; Region: ArsC; pfam03960 409026006662 catalytic residues [active] 409026006663 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 409026006664 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026006665 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 409026006666 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3249 409026006667 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 409026006668 Permease family; Region: Xan_ur_permease; cl00967 409026006669 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 409026006670 putative GSH binding site [chemical binding]; other site 409026006671 catalytic residues [active] 409026006672 superoxide dismutase; Provisional; Region: PRK10543 409026006673 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 409026006674 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 409026006675 Intracellular proteinase inhibitor; Region: BsuPI; pfam12690 409026006676 AsmA family; Region: AsmA; pfam05170 409026006677 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 409026006678 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 409026006679 TMAO/DMSO reductase; Reviewed; Region: PRK05363 409026006680 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 409026006681 Moco binding site; other site 409026006682 metal coordination site [ion binding]; other site 409026006683 DNA recombination protein RmuC; Provisional; Region: PRK10361 409026006684 RmuC family; Region: RmuC; pfam02646 409026006685 lytic murein transglycosylase; Provisional; Region: PRK11619 409026006686 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 409026006687 N-acetyl-D-glucosamine binding site [chemical binding]; other site 409026006688 catalytic residue [active] 409026006689 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 409026006690 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026006691 Walker A motif; other site 409026006692 ATP binding site [chemical binding]; other site 409026006693 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 409026006694 Walker B motif; other site 409026006695 arginine finger; other site 409026006696 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 409026006697 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 409026006698 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 409026006699 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 409026006700 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 409026006701 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; cl15476 409026006702 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 409026006703 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026006704 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026006705 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 409026006706 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026006707 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 409026006708 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 409026006709 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 409026006710 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl09485 409026006711 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 409026006712 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 409026006713 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 409026006714 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 409026006715 [4Fe-4S] binding site [ion binding]; other site 409026006716 molybdopterin cofactor binding site; other site 409026006717 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 409026006718 molybdopterin cofactor binding site; other site 409026006719 NapD protein; Region: NapD; cl01163 409026006720 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 409026006721 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 409026006722 ATP binding site [chemical binding]; other site 409026006723 putative Mg++ binding site [ion binding]; other site 409026006724 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 409026006725 nucleotide binding region [chemical binding]; other site 409026006726 ATP-binding site [chemical binding]; other site 409026006727 Helicase associated domain (HA2); Region: HA2; cl04503 409026006728 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 409026006729 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 409026006730 FOG: CBS domain [General function prediction only]; Region: COG0517 409026006731 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_16; cd04629 409026006732 Protein of unknown function (DUF3233); Region: DUF3233; pfam11557 409026006733 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 409026006734 active site 409026006735 dimer interface [polypeptide binding]; other site 409026006736 catalytic nucleophile [active] 409026006737 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 409026006738 Surface antigen; Region: Bac_surface_Ag; cl03097 409026006739 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 409026006740 Family of unknown function (DUF490); Region: DUF490; pfam04357 409026006741 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 409026006742 DNA-binding site [nucleotide binding]; DNA binding site 409026006743 FCD domain; Region: FCD; cl11656 409026006744 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; cd00625 409026006745 transmembrane helices; other site 409026006746 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 409026006747 PrkA family serine protein kinase; Provisional; Region: PRK15455 409026006748 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026006749 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 409026006750 Uncharacterized conserved protein [Function unknown]; Region: COG2718 409026006751 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 409026006752 SpoVR family protein; Provisional; Region: PRK11767 409026006753 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 409026006754 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 409026006755 5S rRNA interface [nucleotide binding]; other site 409026006756 CTC domain interface [polypeptide binding]; other site 409026006757 L16 interface [polypeptide binding]; other site 409026006758 Peptidase M15; Region: Peptidase_M15_3; cl01194 409026006759 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 409026006760 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 409026006761 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 409026006762 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 409026006763 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 409026006764 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 409026006765 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 409026006766 GIY-YIG motif/motif A; other site 409026006767 active site 409026006768 catalytic site [active] 409026006769 putative DNA binding site [nucleotide binding]; other site 409026006770 metal binding site [ion binding]; metal-binding site 409026006771 UvrB/uvrC motif; Region: UVR; pfam02151 409026006772 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 409026006773 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 409026006774 DNA binding residues [nucleotide binding] 409026006775 dimerization interface [polypeptide binding]; other site 409026006776 Response regulator receiver domain; Region: Response_reg; pfam00072 409026006777 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 409026006778 active site 409026006779 phosphorylation site [posttranslational modification] 409026006780 intermolecular recognition site; other site 409026006781 dimerization interface [polypeptide binding]; other site 409026006782 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 409026006783 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 409026006784 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 409026006785 active site 1 [active] 409026006786 dimer interface [polypeptide binding]; other site 409026006787 active site 2 [active] 409026006788 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 409026006789 ABC transporter ATPase component; Reviewed; Region: PRK11147 409026006790 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 facilitated...; Region: ABCF_EF-3; cd03221 409026006791 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026006792 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 facilitated...; Region: ABCF_EF-3; cd03221 409026006793 ABC transporter; Region: ABC_tran_2; pfam12848 409026006794 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 facilitated...; Region: ABCF_EF-3; cd03221 409026006795 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 409026006796 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 409026006797 THUMP domain; Region: THUMP; cl12076 409026006798 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 409026006799 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 409026006800 S-adenosylmethionine binding site [chemical binding]; other site 409026006801 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 409026006802 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 409026006803 active site 409026006804 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 409026006805 Dihydroorotate dehydrogenase (DHOD) class 2. 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 nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 409026006806 quinone interaction residues [chemical binding]; other site 409026006807 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 409026006808 active site 409026006809 catalytic residues [active] 409026006810 FMN binding site [chemical binding]; other site 409026006811 substrate binding site [chemical binding]; other site 409026006812 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 409026006813 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 409026006814 Protein export membrane protein; Region: SecD_SecF; cl14618 409026006815 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 409026006816 Ycf48-like protein; Provisional; Region: PRK13684 409026006817 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 409026006818 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 409026006819 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 409026006820 aminopeptidase N; Provisional; Region: pepN; PRK14015 409026006821 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 409026006822 active site 409026006823 Zn binding site [ion binding]; other site 409026006824 carboxy-terminal protease; Provisional; Region: PRK11186 409026006825 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 409026006826 protein binding site [polypeptide binding]; other site 409026006827 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 409026006828 Catalytic dyad [active] 409026006829 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 409026006830 ProP expression regulator; Provisional; Region: PRK04950 409026006831 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 409026006832 GAF domain; Region: GAF; cl00853 409026006833 YebG protein; Region: YebG; cl01217 409026006834 Paraquat-inducible protein A; Region: PqiA; pfam04403 409026006835 Paraquat-inducible protein A; Region: PqiA; pfam04403 409026006836 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 409026006837 mce related protein; Region: MCE; cl15431 409026006838 mce related protein; Region: MCE; cl15431 409026006839 mce related protein; Region: MCE; cl15431 409026006840 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 409026006841 mce related protein; Region: MCE; cl15431 409026006842 mce related protein; Region: MCE; cl15431 409026006843 Nucleoside recognition; Region: Gate; cl00486 409026006844 Nucleoside recognition; Region: Gate; cl00486 409026006845 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 409026006846 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 409026006847 Uncharacterized conserved protein [Function unknown]; Region: COG3270 409026006848 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 409026006849 active site 409026006850 PilZ domain; Region: PilZ; cl01260 409026006851 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 409026006852 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026006853 thymidylate kinase; Validated; Region: tmk; PRK00698 409026006854 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 409026006855 TMP-binding site; other site 409026006856 ATP-binding site [chemical binding]; other site 409026006857 YceG-like family; Region: YceG; pfam02618 409026006858 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 409026006859 dimerization interface [polypeptide binding]; other site 409026006860 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 409026006861 Aminotransferase class IV; Region: Aminotran_4; pfam01063 409026006862 pyridoxal 5'-phosphate binding site [chemical binding]; other site 409026006863 catalytic residue [active] 409026006864 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 409026006865 Sugar specificity; other site 409026006866 Pyrimidine base specificity; other site 409026006867 ATP-binding site [chemical binding]; other site 409026006868 antiporter inner membrane protein; Provisional; Region: PRK11670 409026006869 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 409026006870 Walker A motif; other site 409026006871 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 409026006872 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 409026006873 active site 409026006874 HIGH motif; other site 409026006875 KMSKS motif; other site 409026006876 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 409026006877 tRNA binding surface [nucleotide binding]; other site 409026006878 anticodon binding site; other site 409026006879 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 409026006880 dimer interface [polypeptide binding]; other site 409026006881 putative tRNA-binding site [nucleotide binding]; other site 409026006882 Uncharacterized conserved protein [Function unknown]; Region: COG0327 409026006883 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 409026006884 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 409026006885 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 409026006886 putative substrate translocation pore; other site 409026006887 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK08979 409026006888 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 409026006889 PYR/PP interface [polypeptide binding]; other site 409026006890 dimer interface [polypeptide binding]; other site 409026006891 TPP binding site [chemical binding]; other site 409026006892 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 409026006893 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 409026006894 TPP-binding site [chemical binding]; other site 409026006895 dimer interface [polypeptide binding]; other site 409026006896 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 409026006897 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 409026006898 putative valine binding site [chemical binding]; other site 409026006899 dimer interface [polypeptide binding]; other site 409026006900 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 409026006901 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 409026006902 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 409026006903 putative dimer interface [polypeptide binding]; other site 409026006904 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 409026006905 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 409026006906 active site 409026006907 metal binding site [ion binding]; metal-binding site 409026006908 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 409026006909 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 409026006910 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 409026006911 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 409026006912 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 409026006913 putative dimer interface [polypeptide binding]; other site 409026006914 N-terminal domain interface [polypeptide binding]; other site 409026006915 putative substrate binding pocket (H-site) [chemical binding]; other site 409026006916 Protein of unknown function (DUF3389); Region: DUF3389; pfam11869 409026006917 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 409026006918 Predicted transcriptional regulator [Transcription]; Region: COG2378 409026006919 lytic murein transglycosylase; Region: MltB_2; TIGR02283 409026006920 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 409026006921 N-acetyl-D-glucosamine binding site [chemical binding]; other site 409026006922 catalytic residue [active] 409026006923 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 409026006924 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 409026006925 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 409026006926 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 409026006927 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 409026006928 active site 409026006929 phosphorylation site [posttranslational modification] 409026006930 intermolecular recognition site; other site 409026006931 dimerization interface [polypeptide binding]; other site 409026006932 Protein of unknown function (DUF3262); Region: DUF3262; cl13160 409026006933 Mechanosensitive ion channel; Region: MS_channel; pfam00924 409026006934 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 409026006935 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 409026006936 Domain of unknown function (DUF307); Region: DUF307; pfam03733 409026006937 Domain of unknown function (DUF307); Region: DUF307; pfam03733 409026006938 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 409026006939 homoserine O-acetyltransferase; Provisional; Region: metX; cl15472 409026006940 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 409026006941 active site 409026006942 Zn binding site [ion binding]; other site 409026006943 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl15306 409026006944 membrane-bound complex binding site; other site 409026006945 hinge residues; other site 409026006946 Putative transmembrane protein (PGPGW); Region: PGPGW; cl09870 409026006947 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 409026006948 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026006949 Helix-turn-helix domains; Region: HTH; cl00088 409026006950 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 409026006951 dimerization interface [polypeptide binding]; other site 409026006952 Cupin domain; Region: Cupin_2; cl09118 409026006953 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 409026006954 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 409026006955 dimer interface [polypeptide binding]; other site 409026006956 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 409026006957 active site 409026006958 Fe binding site [ion binding]; other site 409026006959 LysE type translocator; Region: LysE; cl00565 409026006960 FemAB family; Region: FemAB; cl11444 409026006961 Protein of unknown function, DUF482; Region: DUF482; pfam04339 409026006962 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 409026006963 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 409026006964 Protein of unknown function (DUF419); Region: DUF419; cl15265 409026006965 Acetoacetate decarboxylase (ADC); Region: ADC; cl01919 409026006966 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026006967 Uncharacterized conserved protein [Function unknown]; Region: COG3349 409026006968 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 409026006969 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 409026006970 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 409026006971 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 409026006972 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 409026006973 catalytic loop [active] 409026006974 iron binding site [ion binding]; other site 409026006975 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 409026006976 FAD binding pocket [chemical binding]; other site 409026006977 FAD binding motif [chemical binding]; other site 409026006978 phosphate binding motif [ion binding]; other site 409026006979 beta-alpha-beta structure motif; other site 409026006980 NAD binding pocket [chemical binding]; other site 409026006981 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 409026006982 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 409026006983 FMN-binding domain; Region: FMN_bind; cl01081 409026006984 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 409026006985 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 409026006986 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 409026006987 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 409026006988 E3 interaction surface; other site 409026006989 lipoyl attachment site [posttranslational modification]; other site 409026006990 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 409026006991 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 409026006992 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 409026006993 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 409026006994 FtsX-like permease family; Region: FtsX; pfam02687 409026006995 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 409026006996 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 409026006997 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 409026006998 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 409026006999 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 409026007000 Walker A/P-loop; other site 409026007001 ATP binding site [chemical binding]; other site 409026007002 Q-loop/lid; other site 409026007003 ABC transporter signature motif; other site 409026007004 Walker B; other site 409026007005 D-loop; other site 409026007006 H-loop/switch region; other site 409026007007 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 409026007008 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 409026007009 putative FMN binding site [chemical binding]; other site 409026007010 DoxX; Region: DoxX; cl00976 409026007011 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cl15691 409026007012 active site 409026007013 ATP binding site [chemical binding]; other site 409026007014 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cl15691 409026007015 substrate binding site [chemical binding]; other site 409026007016 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 409026007017 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 409026007018 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 409026007019 N-terminal plug; other site 409026007020 ligand-binding site [chemical binding]; other site 409026007021 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 409026007022 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 409026007023 putative dimer interface [polypeptide binding]; other site 409026007024 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 409026007025 CoenzymeA binding site [chemical binding]; other site 409026007026 subunit interaction site [polypeptide binding]; other site 409026007027 PHB binding site; other site 409026007028 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 409026007029 CoenzymeA binding site [chemical binding]; other site 409026007030 subunit interaction site [polypeptide binding]; other site 409026007031 PHB binding site; other site 409026007032 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 409026007033 nucleotide binding site/active site [active] 409026007034 HIT family signature motif; other site 409026007035 catalytic residue [active] 409026007036 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 409026007037 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 409026007038 DNA binding residues [nucleotide binding] 409026007039 dimerization interface [polypeptide binding]; other site 409026007040 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 409026007041 binding surface 409026007042 TPR motif; other site 409026007043 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 409026007044 active site 409026007045 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 409026007046 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 409026007047 active site 409026007048 ATP binding site [chemical binding]; other site 409026007049 substrate binding site [chemical binding]; other site 409026007050 activation loop (A-loop); other site 409026007051 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 409026007052 putative sialic acid transporter; Region: 2A0112; TIGR00891 409026007053 putative substrate translocation pore; other site 409026007054 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; cl11420 409026007055 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 409026007056 nitrite reductase subunit NirD; Provisional; Region: PRK14989 409026007057 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 409026007058 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 409026007059 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 409026007060 ANTAR domain; Region: ANTAR; cl04297 409026007061 hypothetical protein; Validated; Region: PRK09071 409026007062 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 409026007063 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 409026007064 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 409026007065 [4Fe-4S] binding site [ion binding]; other site 409026007066 molybdopterin cofactor binding site; other site 409026007067 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 409026007068 molybdopterin cofactor binding site; other site 409026007069 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 409026007070 Peptidase family M48; Region: Peptidase_M48; cl12018 409026007071 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 409026007072 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026007073 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 409026007074 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 409026007075 S-adenosylmethionine binding site [chemical binding]; other site 409026007076 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 409026007077 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 409026007078 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 409026007079 catalytic residue [active] 409026007080 biotin synthase; Region: bioB; TIGR00433 409026007081 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 409026007082 FeS/SAM binding site; other site 409026007083 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 409026007084 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 409026007085 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 409026007086 inhibitor-cofactor binding pocket; inhibition site 409026007087 pyridoxal 5'-phosphate binding site [chemical binding]; other site 409026007088 catalytic residue [active] 409026007089 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 409026007090 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 409026007091 Zn binding site [ion binding]; other site 409026007092 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 409026007093 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 409026007094 dimerization interface [polypeptide binding]; other site 409026007095 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 409026007096 elongation factor G; Reviewed; Region: PRK00007 409026007097 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 so...; Region: EF-G; cd01886 409026007098 G1 box; other site 409026007099 putative GEF interaction site [polypeptide binding]; other site 409026007100 GTP/Mg2+ binding site [chemical binding]; other site 409026007101 Switch I region; other site 409026007102 G2 box; other site 409026007103 G3 box; other site 409026007104 Switch II region; other site 409026007105 G4 box; other site 409026007106 G5 box; other site 409026007107 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 409026007108 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 409026007109 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 409026007110 polynucleotide kinase; Provisional; Region: pseT; PHA02530 409026007111 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026007112 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 409026007113 NAD+ binding site [chemical binding]; other site 409026007114 substrate binding site [chemical binding]; other site 409026007115 Zn binding site [ion binding]; other site 409026007116 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 409026007117 metal binding site 2 [ion binding]; metal-binding site 409026007118 putative DNA binding helix; other site 409026007119 metal binding site 1 [ion binding]; metal-binding site 409026007120 dimer interface [polypeptide binding]; other site 409026007121 structural Zn2+ binding site [ion binding]; other site 409026007122 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 409026007123 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 409026007124 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 409026007125 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 409026007126 active site 409026007127 FMN binding site [chemical binding]; other site 409026007128 substrate binding site [chemical binding]; other site 409026007129 3Fe-4S cluster binding site [ion binding]; other site 409026007130 Membrane transport protein; Region: Mem_trans; cl09117 409026007131 Cache domain; Region: Cache_1; pfam02743 409026007132 two component system sensor kinase SsrA; Provisional; Region: PRK15347 409026007133 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 409026007134 dimerization interface [polypeptide binding]; other site 409026007135 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 409026007136 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 409026007137 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 409026007138 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026007139 CoA-ligase; Region: Ligase_CoA; pfam00549 409026007140 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 409026007141 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 409026007142 CoA-ligase; Region: Ligase_CoA; pfam00549 409026007143 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 409026007144 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 409026007145 E3 interaction surface; other site 409026007146 lipoyl attachment site [posttranslational modification]; other site 409026007147 e3 binding domain; Region: E3_binding; pfam02817 409026007148 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 409026007149 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 409026007150 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 409026007151 TPP-binding site [chemical binding]; other site 409026007152 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 409026007153 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 409026007154 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026007155 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 409026007156 domain; Region: Succ_DH_flav_C; pfam02910 409026007157 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 409026007158 SdhC subunit interface [polypeptide binding]; other site 409026007159 proximal heme binding site [chemical binding]; other site 409026007160 cardiolipin binding site; other site 409026007161 Iron-sulfur protein interface; other site 409026007162 proximal quinone binding site [chemical binding]; other site 409026007163 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 409026007164 Iron-sulfur protein interface; other site 409026007165 proximal quinone binding site [chemical binding]; other site 409026007166 SdhD (CybS) interface [polypeptide binding]; other site 409026007167 proximal heme binding site [chemical binding]; other site 409026007168 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 409026007169 dimer interface [polypeptide binding]; other site 409026007170 Citrate synthase; Region: Citrate_synt; pfam00285 409026007171 active site 409026007172 citrylCoA binding site [chemical binding]; other site 409026007173 NADH binding [chemical binding]; other site 409026007174 cationic pore residues; other site 409026007175 oxalacetate/citrate binding site [chemical binding]; other site 409026007176 coenzyme A binding site [chemical binding]; other site 409026007177 catalytic triad [active] 409026007178 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 409026007179 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 409026007180 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 409026007181 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 409026007182 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 409026007183 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 409026007184 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 409026007185 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 409026007186 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 409026007187 B12 binding site [chemical binding]; other site 409026007188 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 409026007189 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 409026007190 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 409026007191 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 409026007192 Protein export membrane protein; Region: SecD_SecF; cl14618 409026007193 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 409026007194 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 409026007195 2',3'-cyclic-nucleotide 2'-phosphodiesterase; Region: CycNucDiestase; TIGR01390 409026007196 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 409026007197 active site 409026007198 metal binding site [ion binding]; metal-binding site 409026007199 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 409026007200 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 409026007201 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 409026007202 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 409026007203 motif II; other site 409026007204 Cache domain; Region: Cache_1; pfam02743 409026007205 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 409026007206 dimerization interface [polypeptide binding]; other site 409026007207 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 409026007208 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 409026007209 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 409026007210 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 409026007211 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 409026007212 active site 409026007213 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 409026007214 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 409026007215 active site 409026007216 phosphate binding residues; other site 409026007217 catalytic residues [active] 409026007218 Dicarboxylate transport; Region: DctA-YdbH; cl14674 409026007219 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 409026007220 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 409026007221 Domain of unknown function DUF20; Region: UPF0118; cl00465 409026007222 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 409026007223 Ion channel; Region: Ion_trans_2; cl11596 409026007224 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 409026007225 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 409026007226 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 409026007227 DNA-binding transcriptional activator CadC; Provisional; Region: PRK10153 409026007228 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 409026007229 DNA binding site [nucleotide binding] 409026007230 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 409026007231 multidrug efflux protein; Reviewed; Region: PRK09579 409026007232 EamA-like transporter family; Region: EamA; cl01037 409026007233 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 409026007234 EamA-like transporter family; Region: EamA; cl01037 409026007235 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 409026007236 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026007237 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 409026007238 ATP phosphoribosyltransferase; Region: HisG; cl15266 409026007239 HisG, C-terminal domain; Region: HisG_C; cl06867 409026007240 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 409026007241 histidinol dehydrogenase; Region: hisD; TIGR00069 409026007242 NAD binding site [chemical binding]; other site 409026007243 dimerization interface [polypeptide binding]; other site 409026007244 product binding site; other site 409026007245 substrate binding site [chemical binding]; other site 409026007246 zinc binding site [ion binding]; other site 409026007247 catalytic residues [active] 409026007248 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 409026007249 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 409026007250 pyridoxal 5'-phosphate binding site [chemical binding]; other site 409026007251 homodimer interface [polypeptide binding]; other site 409026007252 catalytic residue [active] 409026007253 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 409026007254 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 409026007255 active site 409026007256 motif I; other site 409026007257 motif II; other site 409026007258 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 409026007259 putative active site pocket [active] 409026007260 4-fold oligomerization interface [polypeptide binding]; other site 409026007261 metal binding residues [ion binding]; metal-binding site 409026007262 3-fold/trimer interface [polypeptide binding]; other site 409026007263 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 409026007264 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 409026007265 putative active site [active] 409026007266 oxyanion strand; other site 409026007267 catalytic triad [active] 409026007268 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 409026007269 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 409026007270 catalytic residues [active] 409026007271 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 409026007272 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 409026007273 substrate binding site [chemical binding]; other site 409026007274 glutamase interaction surface [polypeptide binding]; other site 409026007275 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 409026007276 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 409026007277 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 409026007278 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl15306 409026007279 substrate binding pocket [chemical binding]; other site 409026007280 membrane-bound complex binding site; other site 409026007281 hinge residues; other site 409026007282 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 409026007283 ATP binding site [chemical binding]; other site 409026007284 active site 409026007285 substrate binding site [chemical binding]; other site 409026007286 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 409026007287 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 409026007288 putative acyl-acceptor binding pocket; other site 409026007289 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 409026007290 IHF dimer interface [polypeptide binding]; other site 409026007291 IHF - DNA interface [nucleotide binding]; other site 409026007292 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 409026007293 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 409026007294 putative tRNA-binding site [nucleotide binding]; other site 409026007295 B3/4 domain; Region: B3_4; cl11458 409026007296 tRNA synthetase B5 domain; Region: B5; cl08394 409026007297 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 409026007298 dimer interface [polypeptide binding]; other site 409026007299 motif 1; other site 409026007300 motif 3; other site 409026007301 motif 2; other site 409026007302 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 409026007303 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 409026007304 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 409026007305 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 409026007306 dimer interface [polypeptide binding]; other site 409026007307 motif 1; other site 409026007308 active site 409026007309 motif 2; other site 409026007310 motif 3; other site 409026007311 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 409026007312 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 409026007313 Cache domain; Region: Cache_1; pfam02743 409026007314 PAS fold; Region: PAS_4; pfam08448 409026007315 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 409026007316 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 409026007317 Protein of unknown function (DUF785); Region: DUF785; cl01682 409026007318 Protein of unknown function (DUF785); Region: DUF785; cl01682 409026007319 Protein of unknown function (DUF3802); Region: DUF3802; pfam12290 409026007320 YceI-like domain; Region: YceI; cl01001 409026007321 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 409026007322 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 409026007323 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 409026007324 Arginase family; Region: Arginase; cl00306 409026007325 Adenosylmethionine decarboxylase; Region: SAM_decarbox; cl03253 409026007326 arginine decarboxylase; Provisional; Region: PRK05354 409026007327 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 409026007328 dimer interface [polypeptide binding]; other site 409026007329 active site 409026007330 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 409026007331 catalytic residues [active] 409026007332 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 409026007333 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 409026007334 hypothetical protein; Provisional; Region: PRK11239 409026007335 Protein of unknown function, DUF480; Region: DUF480; cl01209 409026007336 ABC-2 type transporter; Region: ABC2_membrane; cl11417 409026007337 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 409026007338 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026007339 Walker A/P-loop; other site 409026007340 ATP binding site [chemical binding]; other site 409026007341 Q-loop/lid; other site 409026007342 ABC transporter signature motif; other site 409026007343 Walker B; other site 409026007344 D-loop; other site 409026007345 H-loop/switch region; other site 409026007346 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 409026007347 DNA-binding site [nucleotide binding]; DNA binding site 409026007348 RNA-binding motif; other site 409026007349 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 409026007350 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 409026007351 S-adenosylmethionine binding site [chemical binding]; other site 409026007352 exonuclease I; Provisional; Region: sbcB; PRK11779 409026007353 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 409026007354 active site 409026007355 substrate binding site [chemical binding]; other site 409026007356 catalytic site [active] 409026007357 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 409026007358 cytidine deaminase; Provisional; Region: PRK09027 409026007359 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 409026007360 active site 409026007361 catalytic motif [active] 409026007362 Zn binding site [ion binding]; other site 409026007363 Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members...; Region: cytidine_deaminase-like; cl00269 409026007364 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 409026007365 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026007366 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 409026007367 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 409026007368 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 409026007369 dimer interface [polypeptide binding]; other site 409026007370 active site 409026007371 Phosphopantetheine attachment site; Region: PP-binding; cl09936 409026007372 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 409026007373 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 409026007374 NAD(P) binding site [chemical binding]; other site 409026007375 homotetramer interface [polypeptide binding]; other site 409026007376 homodimer interface [polypeptide binding]; other site 409026007377 active site 409026007378 Acyl transferase domain; Region: Acyl_transf_1; cl08282 409026007379 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 409026007380 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 409026007381 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 409026007382 dimer interface [polypeptide binding]; other site 409026007383 active site 409026007384 CoA binding pocket [chemical binding]; other site 409026007385 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 409026007386 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 409026007387 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 409026007388 Maf-like protein; Region: Maf; pfam02545 409026007389 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 409026007390 active site 409026007391 dimer interface [polypeptide binding]; other site 409026007392 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 409026007393 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 409026007394 motif II; other site 409026007395 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 409026007396 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 409026007397 RNA binding surface [nucleotide binding]; other site 409026007398 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 and...; Region: PseudoU_synth_RluCD_like; cd02869 409026007399 active site 409026007400 ribonuclease E; Reviewed; Region: rne; PRK10811 409026007401 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 409026007402 homodimer interface [polypeptide binding]; other site 409026007403 oligonucleotide binding site [chemical binding]; other site 409026007404 Permease family; Region: Xan_ur_permease; cl00967 409026007405 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 409026007406 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 409026007407 SelR domain; Region: SelR; cl00369 409026007408 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 409026007409 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 409026007410 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 409026007411 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 409026007412 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. The...; Region: YlqF; cd01856 409026007413 GTP/Mg2+ binding site [chemical binding]; other site 409026007414 G4 box; other site 409026007415 G5 box; other site 409026007416 G1 box; other site 409026007417 Switch I region; other site 409026007418 G2 box; other site 409026007419 G3 box; other site 409026007420 Switch II region; other site 409026007421 HupE / UreJ protein; Region: HupE_UreJ; cl01011 409026007422 SCP-2 sterol transfer family; Region: SCP2; cl01225 409026007423 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 409026007424 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 409026007425 Predicted periplasmic protein (DUF2271); Region: DUF2271; cl01469 409026007426 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 409026007427 Nickel uptake substrate-specific transmembrane region; Region: NikM; pfam10670 409026007428 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 409026007429 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 409026007430 N-terminal plug; other site 409026007431 ligand-binding site [chemical binding]; other site 409026007432 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 409026007433 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 409026007434 active site 409026007435 phosphorylation site [posttranslational modification] 409026007436 intermolecular recognition site; other site 409026007437 dimerization interface [polypeptide binding]; other site 409026007438 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 409026007439 DNA binding site [nucleotide binding] 409026007440 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 409026007441 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 409026007442 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 409026007443 dimer interface [polypeptide binding]; other site 409026007444 phosphorylation site [posttranslational modification] 409026007445 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 409026007446 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 409026007447 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 409026007448 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 409026007449 Gram-negative bacterial tonB protein; Region: TonB; cl10048 409026007450 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 409026007451 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 409026007452 Protein export membrane protein; Region: SecD_SecF; cl14618 409026007453 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 409026007454 DNA ligase; Provisional; Region: PRK09125 409026007455 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 409026007456 DNA binding site [nucleotide binding] 409026007457 active site 409026007458 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 409026007459 DNA binding site [nucleotide binding] 409026007460 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 409026007461 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 409026007462 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 409026007463 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 409026007464 PA/protease or protease-like domain interface [polypeptide binding]; other site 409026007465 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 409026007466 metal binding site [ion binding]; metal-binding site 409026007467 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026007468 metal binding site [ion binding]; metal-binding site 409026007469 active site 409026007470 I-site; other site 409026007471 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_4; cd05828 409026007472 active site 409026007473 catalytic site [active] 409026007474 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 409026007475 Vault protein inter-alpha-trypsin; Region: VIT; cl02699 409026007476 vWA_interalpha trypsin inhibitor (ITI): ITI is a glycoprotein composed of three polypeptides- two heavy chains and one light chain (bikunin). Bikunin confers the protease-inhibitor function while the heavy chains are involved in rendering stability to...; Region: vWA_interalpha_trypsin_inhibitor; cd01461 409026007477 metal ion-dependent adhesion site (MIDAS); other site 409026007478 proteobacterial sortase system OmpA family protein; Region: pdsO; TIGR03789 409026007479 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 409026007480 ligand binding site [chemical binding]; other site 409026007481 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 409026007482 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 409026007483 active site 409026007484 phosphorylation site [posttranslational modification] 409026007485 intermolecular recognition site; other site 409026007486 dimerization interface [polypeptide binding]; other site 409026007487 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 409026007488 DNA binding site [nucleotide binding] 409026007489 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 409026007490 DOMON-like type 9 carbohydrate binding module at the N-terminus of bacterial sensor histidine kinases; Region: CBM9_like_HisKa; cd09622 409026007491 putative ligand binding site [chemical binding]; other site 409026007492 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 409026007493 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 409026007494 dimer interface [polypeptide binding]; other site 409026007495 phosphorylation site [posttranslational modification] 409026007496 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 409026007497 ATP binding site [chemical binding]; other site 409026007498 Mg2+ binding site [ion binding]; other site 409026007499 G-X-G motif; other site 409026007500 cystathionine beta-lyase; Provisional; Region: PRK09028 409026007501 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 409026007502 homodimer interface [polypeptide binding]; other site 409026007503 substrate-cofactor binding pocket; other site 409026007504 pyridoxal 5'-phosphate binding site [chemical binding]; other site 409026007505 catalytic residue [active] 409026007506 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 409026007507 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 409026007508 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 409026007509 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 409026007510 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 409026007511 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 409026007512 Transposase; Region: DEDD_Tnp_IS110; pfam01548 409026007513 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 409026007514 DNA binding site [nucleotide binding] 409026007515 active site 409026007516 Int/Topo IB signature motif; other site 409026007517 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 409026007518 Domain of unknown function (DUF4250); Region: DUF4250; pfam14056 409026007519 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 409026007520 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 409026007521 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 409026007522 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 409026007523 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 409026007524 carboxyltransferase (CT) interaction site; other site 409026007525 biotinylation site [posttranslational modification]; other site 409026007526 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 409026007527 DNA topoisomerase III; Provisional; Region: PRK07726 409026007528 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 409026007529 active site 409026007530 putative interdomain interaction site [polypeptide binding]; other site 409026007531 putative metal-binding site [ion binding]; other site 409026007532 putative nucleotide binding site [chemical binding]; other site 409026007533 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 409026007534 domain I; other site 409026007535 DNA binding groove [nucleotide binding] 409026007536 phosphate binding site [ion binding]; other site 409026007537 domain II; other site 409026007538 domain III; other site 409026007539 nucleotide binding site [chemical binding]; other site 409026007540 catalytic site [active] 409026007541 domain IV; other site 409026007542 amidophosphoribosyltransferase; Provisional; Region: PRK09246 409026007543 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 409026007544 active site 409026007545 tetramer interface [polypeptide binding]; other site 409026007546 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 409026007547 Colicin V production protein; Region: Colicin_V; cl00567 409026007548 cell division protein DedD; Provisional; Region: PRK11633 409026007549 Sporulation related domain; Region: SPOR; cl10051 409026007550 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 409026007551 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 409026007552 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 409026007553 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 409026007554 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 409026007555 dimerization interface 3.5A [polypeptide binding]; other site 409026007556 active site 409026007557 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 409026007558 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 409026007559 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 409026007560 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026007561 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 409026007562 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 409026007563 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 409026007564 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026007565 Domain of unknown function (DUF3410); Region: DUF3410; pfam11890 409026007566 VanZ like family; Region: VanZ; cl01971 409026007567 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 409026007568 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 409026007569 dimer interface [polypeptide binding]; other site 409026007570 active site 409026007571 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026007572 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 409026007573 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 409026007574 YfcL protein; Region: YfcL; pfam08891 409026007575 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 409026007576 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 409026007577 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 409026007578 putative substrate translocation pore; other site 409026007579 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 409026007580 Tetramer interface [polypeptide binding]; other site 409026007581 active site 409026007582 FMN-binding site [chemical binding]; other site 409026007583 HemK family putative methylases; Region: hemK_fam; TIGR00536 409026007584 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 409026007585 S-adenosylmethionine binding site [chemical binding]; other site 409026007586 hypothetical protein; Provisional; Region: PRK04946 409026007587 Smr domain; Region: Smr; cl02619 409026007588 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 409026007589 catalytic core [active] 409026007590 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 409026007591 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 409026007592 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 409026007593 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 409026007594 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 409026007595 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 409026007596 PAS fold; Region: PAS_3; pfam08447 409026007597 PAS domain S-box; Region: sensory_box; TIGR00229 409026007598 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 409026007599 putative active site [active] 409026007600 heme pocket [chemical binding]; other site 409026007601 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026007602 metal binding site [ion binding]; metal-binding site 409026007603 active site 409026007604 I-site; other site 409026007605 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 409026007606 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 409026007607 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 409026007608 substrate binding site [chemical binding]; other site 409026007609 oxyanion hole (OAH) forming residues; other site 409026007610 trimer interface [polypeptide binding]; other site 409026007611 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 409026007612 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 409026007613 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 409026007614 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 409026007615 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 409026007616 dimer interface [polypeptide binding]; other site 409026007617 active site 409026007618 MoxR-like ATPases [General function prediction only]; Region: COG0714 409026007619 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026007620 Walker A motif; other site 409026007621 ATP binding site [chemical binding]; other site 409026007622 Walker B motif; other site 409026007623 arginine finger; other site 409026007624 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026007625 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 409026007626 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 409026007627 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 409026007628 VWA BatA type: 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...; Region: vWA_BatA_type; cd01467 409026007629 metal ion-dependent adhesion site (MIDAS); other site 409026007630 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 409026007631 metal ion-dependent adhesion site (MIDAS); other site 409026007632 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 409026007633 TPR motif; other site 409026007634 Oxygen tolerance; Region: BatD; pfam13584 409026007635 RNA polymerase sigma factor; Provisional; Region: PRK12517 409026007636 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 409026007637 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 409026007638 DNA binding residues [nucleotide binding] 409026007639 Protein of unknown function (DUF3379); Region: DUF3379; pfam11859 409026007640 Sodium:solute symporter family; Region: SSF; cl00456 409026007641 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 409026007642 Protein of unknown function (DUF541); Region: SIMPL; cl01077 409026007643 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 409026007644 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 409026007645 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 409026007646 Protein export membrane protein; Region: SecD_SecF; cl14618 409026007647 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 409026007648 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 409026007649 active site residue [active] 409026007650 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 409026007651 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 409026007652 active site 409026007653 catalytic residues [active] 409026007654 PA_VapT_like: Protease-associated domain containing proteins like VapT from Vibrio metschnikovii strain RH530. This group contains various PA domain-containing proteins similar to V. metschnikovii VapT, including the serine alkaline protease SapSh from...; Region: PA_VapT_like; cd04817 409026007655 PA/subtilisin-like domain interface [polypeptide binding]; other site 409026007656 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 409026007657 catalytic residues [active] 409026007658 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 409026007659 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 409026007660 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 409026007661 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 409026007662 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 409026007663 dimerization interface [polypeptide binding]; other site 409026007664 active site 409026007665 Protein of unknown function (DUF2810); Region: DUF2810; cl08159 409026007666 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 409026007667 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 409026007668 FeS/SAM binding site; other site 409026007669 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 409026007670 ATP cone domain; Region: ATP-cone; pfam03477 409026007671 Class III ribonucleotide reductase; Region: RNR_III; cd01675 409026007672 effector binding site; other site 409026007673 active site 409026007674 Zn binding site [ion binding]; other site 409026007675 glycine loop; other site 409026007676 Transcriptional regulators [Transcription]; Region: MarR; COG1846 409026007677 Helix-turn-helix domains; Region: HTH; cl00088 409026007678 Prostaglandin dehydrogenases; Region: PGDH; cd05288 409026007679 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 409026007680 NAD(P) binding site [chemical binding]; other site 409026007681 substrate binding site [chemical binding]; other site 409026007682 dimer interface [polypeptide binding]; other site 409026007683 hypothetical protein; Provisional; Region: PRK10279 409026007684 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 409026007685 active site 409026007686 nucleophile elbow; other site 409026007687 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 409026007688 DEAD-like helicases superfamily; Region: DEXDc; smart00487 409026007689 ATP binding site [chemical binding]; other site 409026007690 Mg++ binding site [ion binding]; other site 409026007691 motif III; other site 409026007692 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 409026007693 nucleotide binding region [chemical binding]; other site 409026007694 ATP-binding site [chemical binding]; other site 409026007695 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 409026007696 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 409026007697 Protein of unknown function DUF45; Region: DUF45; cl00636 409026007698 putative peptidase; Provisional; Region: PRK11649 409026007699 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 409026007700 exonuclease SbcC; Region: sbcc; TIGR00618 409026007701 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 409026007702 Walker A/P-loop; other site 409026007703 ATP binding site [chemical binding]; other site 409026007704 Q-loop/lid; other site 409026007705 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 409026007706 ABC transporter signature motif; other site 409026007707 Walker B; other site 409026007708 D-loop; other site 409026007709 H-loop/switch region; other site 409026007710 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 409026007711 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 409026007712 active site 409026007713 metal binding site [ion binding]; metal-binding site 409026007714 DNA binding site [nucleotide binding] 409026007715 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 409026007716 Peptidase propeptide and YPEB domain; Region: PepSY; cl15480 409026007717 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 409026007718 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 409026007719 active site 409026007720 phosphorylation site [posttranslational modification] 409026007721 intermolecular recognition site; other site 409026007722 dimerization interface [polypeptide binding]; other site 409026007723 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 409026007724 DNA binding site [nucleotide binding] 409026007725 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 409026007726 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 409026007727 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 409026007728 ATP binding site [chemical binding]; other site 409026007729 Mg2+ binding site [ion binding]; other site 409026007730 G-X-G motif; other site 409026007731 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 409026007732 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 409026007733 pyridoxal 5'-phosphate binding site [chemical binding]; other site 409026007734 homodimer interface [polypeptide binding]; other site 409026007735 catalytic residue [active] 409026007736 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026007737 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026007738 HupE / UreJ protein; Region: HupE_UreJ; cl01011 409026007739 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 409026007740 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 409026007741 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 409026007742 Peptidase family M48; Region: Peptidase_M48; cl12018 409026007743 Peptidase family M48; Region: Peptidase_M48; cl12018 409026007744 Helix-turn-helix domains; Region: HTH; cl00088 409026007745 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 409026007746 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 409026007747 Helix-turn-helix domains; Region: HTH; cl00088 409026007748 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 409026007749 dimerization interface [polypeptide binding]; other site 409026007750 Nuclease-related domain; Region: NERD; pfam08378 409026007751 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 409026007752 ATP binding site [chemical binding]; other site 409026007753 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 409026007754 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 409026007755 RNA binding surface [nucleotide binding]; other site 409026007756 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 409026007757 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 409026007758 PPIC-type PPIASE domain; Region: Rotamase; cl08278 409026007759 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 409026007760 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026007761 metal binding site [ion binding]; metal-binding site 409026007762 active site 409026007763 I-site; other site 409026007764 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 409026007765 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 409026007766 TPR motif; other site 409026007767 binding surface 409026007768 Gram-negative bacterial tonB protein; Region: TonB; cl10048 409026007769 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 409026007770 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 409026007771 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 409026007772 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 409026007773 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 409026007774 trimer interface [polypeptide binding]; other site 409026007775 eyelet of channel; other site 409026007776 DNA polymerase II; Reviewed; Region: PRK05762 409026007777 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 409026007778 active site 409026007779 catalytic site [active] 409026007780 substrate binding site [chemical binding]; other site 409026007781 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 409026007782 active site 409026007783 metal-binding site 409026007784 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 409026007785 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026007786 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 409026007787 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 409026007788 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 409026007789 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 409026007790 Late competence development protein ComFB; Region: ComFB; pfam10719 409026007791 sporadically distributed protein, TIGR04141 family; Region: TIGR04141 409026007792 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 409026007793 Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient...; Region: SR_Res_par; cd03767 409026007794 catalytic residues [active] 409026007795 catalytic nucleophile [active] 409026007796 Trp repressor protein; Region: Trp_repressor; cl01121 409026007797 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 409026007798 active site 409026007799 metal binding site [ion binding]; metal-binding site 409026007800 interdomain interaction site; other site 409026007801 Helix-turn-helix domains; Region: HTH; cl00088 409026007802 DNA-binding interface [nucleotide binding]; DNA binding site 409026007803 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 409026007804 carbamoyl-phosphate synthase, large subunit; Region: CPSaseII_lrg; TIGR01369 409026007805 Uncharacterised protein family (UPF0075); Region: UPF0075; cl04217 409026007806 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 409026007807 homodimer interface [polypeptide binding]; other site 409026007808 putative active site [active] 409026007809 catalytic site [active] 409026007810 Predicted ATPase [General function prediction only]; Region: COG5293 409026007811 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 409026007812 Phage integrase family; Region: Phage_integrase; pfam00589 409026007813 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 409026007814 Int/Topo IB signature motif; other site 409026007815 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 409026007816 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 409026007817 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 409026007818 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 409026007819 transmembrane helices; other site 409026007820 methionine gamma-lyase; Provisional; Region: PRK06234 409026007821 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 409026007822 homodimer interface [polypeptide binding]; other site 409026007823 substrate-cofactor binding pocket; other site 409026007824 pyridoxal 5'-phosphate binding site [chemical binding]; other site 409026007825 catalytic residue [active] 409026007826 hypothetical protein; Provisional; Region: PRK05415 409026007827 Domain of unknown function (DUF697); Region: DUF697; cl12064 409026007828 YcjX-like family, DUF463; Region: DUF463; cl01193 409026007829 PspC domain; Region: PspC; cl00864 409026007830 phage shock protein C; Region: phageshock_pspC; TIGR02978 409026007831 Phage shock protein B; Region: PspB; cl05946 409026007832 phage shock protein A; Region: phageshock_pspA; TIGR02977 409026007833 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 409026007834 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026007835 Walker A motif; other site 409026007836 ATP binding site [chemical binding]; other site 409026007837 Walker B motif; other site 409026007838 arginine finger; other site 409026007839 Helix-turn-helix domains; Region: HTH; cl00088 409026007840 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 409026007841 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 409026007842 peptide binding site [polypeptide binding]; other site 409026007843 antimicrobial peptide ABC transporter permease SapB; Provisional; Region: PRK15110 409026007844 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 409026007845 dimer interface [polypeptide binding]; other site 409026007846 conserved gate region; other site 409026007847 putative PBP binding loops; other site 409026007848 ABC-ATPase subunit interface; other site 409026007849 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 409026007850 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 409026007851 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 409026007852 dimer interface [polypeptide binding]; other site 409026007853 conserved gate region; other site 409026007854 putative PBP binding loops; other site 409026007855 ABC-ATPase subunit interface; other site 409026007856 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 409026007857 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 409026007858 Walker A/P-loop; other site 409026007859 ATP binding site [chemical binding]; other site 409026007860 Q-loop/lid; other site 409026007861 ABC transporter signature motif; other site 409026007862 Walker B; other site 409026007863 D-loop; other site 409026007864 H-loop/switch region; other site 409026007865 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 409026007866 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 409026007867 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 409026007868 Walker A/P-loop; other site 409026007869 ATP binding site [chemical binding]; other site 409026007870 Q-loop/lid; other site 409026007871 ABC transporter signature motif; other site 409026007872 Walker B; other site 409026007873 D-loop; other site 409026007874 H-loop/switch region; other site 409026007875 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 409026007876 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 409026007877 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 409026007878 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026007879 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 409026007880 periplasmic folding chaperone; Provisional; Region: PRK10788 409026007881 SurA N-terminal domain; Region: SurA_N; pfam09312 409026007882 PPIC-type PPIASE domain; Region: Rotamase; cl08278 409026007883 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 409026007884 IHF dimer interface [polypeptide binding]; other site 409026007885 IHF - DNA interface [nucleotide binding]; other site 409026007886 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 409026007887 Found in ATP-dependent protease La (LON); Region: LON; smart00464 409026007888 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026007889 Walker A motif; other site 409026007890 ATP binding site [chemical binding]; other site 409026007891 Walker B motif; other site 409026007892 arginine finger; other site 409026007893 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 409026007894 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 409026007895 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 409026007896 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026007897 Walker A motif; other site 409026007898 ATP binding site [chemical binding]; other site 409026007899 Walker B motif; other site 409026007900 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 409026007901 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 409026007902 oligomer interface [polypeptide binding]; other site 409026007903 active site residues [active] 409026007904 trigger factor; Provisional; Region: tig; PRK01490 409026007905 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 409026007906 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 409026007907 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 409026007908 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 409026007909 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 409026007910 homodimer interface [polypeptide binding]; other site 409026007911 NADP binding site [chemical binding]; other site 409026007912 substrate binding site [chemical binding]; other site 409026007913 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 409026007914 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 409026007915 active site 409026007916 HIGH motif; other site 409026007917 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 409026007918 KMSKS motif; other site 409026007919 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 409026007920 tRNA binding surface [nucleotide binding]; other site 409026007921 anticodon binding site; other site 409026007922 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 409026007923 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 409026007924 substrate binding site [chemical binding]; other site 409026007925 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 409026007926 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 409026007927 putative active site [active] 409026007928 putative metal binding site [ion binding]; other site 409026007929 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 409026007930 active site 409026007931 dinuclear metal binding site [ion binding]; other site 409026007932 dimerization interface [polypeptide binding]; other site 409026007933 Yip1 domain; Region: Yip1; cl12048 409026007934 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 409026007935 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 409026007936 active site 409026007937 HIGH motif; other site 409026007938 nucleotide binding site [chemical binding]; other site 409026007939 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 409026007940 KMSKS motif; other site 409026007941 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 409026007942 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 409026007943 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 409026007944 G1 box; other site 409026007945 GTP/Mg2+ binding site [chemical binding]; other site 409026007946 Switch I region; other site 409026007947 G2 box; other site 409026007948 G3 box; other site 409026007949 Switch II region; other site 409026007950 G4 box; other site 409026007951 G5 box; other site 409026007952 Nucleoside recognition; Region: Gate; cl00486 409026007953 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 409026007954 Nucleoside recognition; Region: Gate; cl00486 409026007955 FeoA domain; Region: FeoA; cl00838 409026007956 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 409026007957 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 409026007958 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 409026007959 Protein of unknown function (DUF3374); Region: DUF3374; cl11904 409026007960 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 409026007961 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 409026007962 heme-binding residues [chemical binding]; other site 409026007963 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 409026007964 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 409026007965 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 409026007966 heme-binding residues [chemical binding]; other site 409026007967 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 409026007968 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 409026007969 heme-binding residues [chemical binding]; other site 409026007970 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 409026007971 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 409026007972 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 409026007973 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 409026007974 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 409026007975 Protein of unknown function (DUF3374); Region: DUF3374; cl11904 409026007976 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 409026007977 N-terminal plug; other site 409026007978 ligand-binding site [chemical binding]; other site 409026007979 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 409026007980 putative uracil binding site [chemical binding]; other site 409026007981 putative active site [active] 409026007982 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 409026007983 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 409026007984 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 409026007985 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026007986 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026007987 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 409026007988 DNA binding site [nucleotide binding] 409026007989 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 409026007990 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 409026007991 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 409026007992 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 409026007993 GntP family permease; Region: GntP_permease; cl15264 409026007994 Glycerate kinase family; Region: Gly_kinase; cl00841 409026007995 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 409026007996 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 409026007997 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 409026007998 catalytic residue [active] 409026007999 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 409026008000 S-adenosylmethionine binding site [chemical binding]; other site 409026008001 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 409026008002 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 409026008003 putative active site [active] 409026008004 putative NTP binding site [chemical binding]; other site 409026008005 putative nucleic acid binding site [nucleotide binding]; other site 409026008006 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 409026008007 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 409026008008 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 409026008009 active site 409026008010 substrate binding site [chemical binding]; other site 409026008011 metal binding site [ion binding]; metal-binding site 409026008012 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 409026008013 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 and...; Region: PseudoU_synth_RluCD_like; cd02869 409026008014 active site 409026008015 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 409026008016 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 409026008017 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 409026008018 N-terminal plug; other site 409026008019 ligand-binding site [chemical binding]; other site 409026008020 short chain dehydrogenase; Provisional; Region: PRK06123 409026008021 classical (c) SDRs; Region: SDR_c; cd05233 409026008022 NAD(P) binding site [chemical binding]; other site 409026008023 active site 409026008024 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 409026008025 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 409026008026 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 409026008027 trimer interface [polypeptide binding]; other site 409026008028 active site 409026008029 substrate binding site [chemical binding]; other site 409026008030 CoA binding site [chemical binding]; other site 409026008031 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 409026008032 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 409026008033 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 409026008034 putative N-terminal domain interface [polypeptide binding]; other site 409026008035 putative dimer interface [polypeptide binding]; other site 409026008036 putative substrate binding pocket (H-site) [chemical binding]; other site 409026008037 Peptidase family U32; Region: Peptidase_U32; cl03113 409026008038 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 409026008039 active site 409026008040 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 409026008041 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 409026008042 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 409026008043 Mechanosensitive ion channel; Region: MS_channel; pfam00924 409026008044 Gram-negative bacterial tonB protein; Region: TonB; cl10048 409026008045 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 409026008046 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 409026008047 ligand binding site [chemical binding]; other site 409026008048 flexible hinge region; other site 409026008049 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 409026008050 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 409026008051 metal binding triad; other site 409026008052 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 409026008053 active site 409026008054 substrate binding site [chemical binding]; other site 409026008055 catalytic site [active] 409026008056 BCCT family transporter; Region: BCCT; cl00569 409026008057 Predicted acetyltransferase [General function prediction only]; Region: COG3981 409026008058 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 409026008059 Coenzyme A binding pocket [chemical binding]; other site 409026008060 Pirin-related protein [General function prediction only]; Region: COG1741 409026008061 Cupin domain; Region: Cupin_2; cl09118 409026008062 LysR family transcriptional regulator; Provisional; Region: PRK14997 409026008063 Helix-turn-helix domains; Region: HTH; cl00088 409026008064 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 409026008065 putative effector binding pocket; other site 409026008066 dimerization interface [polypeptide binding]; other site 409026008067 Isochorismatase family; Region: Isochorismatase; pfam00857 409026008068 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 409026008069 catalytic triad [active] 409026008070 dimer interface [polypeptide binding]; other site 409026008071 conserved cis-peptide bond; other site 409026008072 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 409026008073 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 409026008074 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 409026008075 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 409026008076 ATP binding site [chemical binding]; other site 409026008077 Mg2+ binding site [ion binding]; other site 409026008078 G-X-G motif; other site 409026008079 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 409026008080 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 409026008081 active site 409026008082 phosphorylation site [posttranslational modification] 409026008083 intermolecular recognition site; other site 409026008084 dimerization interface [polypeptide binding]; other site 409026008085 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026008086 Walker A motif; other site 409026008087 ATP binding site [chemical binding]; other site 409026008088 Walker B motif; other site 409026008089 arginine finger; other site 409026008090 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 409026008091 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 409026008092 FtsX-like permease family; Region: FtsX; pfam02687 409026008093 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 409026008094 FtsX-like permease family; Region: FtsX; pfam02687 409026008095 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 409026008096 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 409026008097 Walker A/P-loop; other site 409026008098 ATP binding site [chemical binding]; other site 409026008099 Q-loop/lid; other site 409026008100 ABC transporter signature motif; other site 409026008101 Walker B; other site 409026008102 D-loop; other site 409026008103 H-loop/switch region; other site 409026008104 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 409026008105 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 409026008106 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 409026008107 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026008108 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 409026008109 NAD(P) binding site [chemical binding]; other site 409026008110 active site 409026008111 peptide synthase; Provisional; Region: PRK09274 409026008112 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 409026008113 haloalkane dehalogenase; Provisional; Region: PRK03592 409026008114 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 409026008115 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09258 409026008116 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 409026008117 dimer interface [polypeptide binding]; other site 409026008118 active site 409026008119 CoA binding pocket [chemical binding]; other site 409026008120 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026008121 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 409026008122 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 409026008123 BCCT family transporter; Region: BCCT; cl00569 409026008124 transcriptional regulator PhoU; Provisional; Region: PRK11115 409026008125 PhoU domain; Region: PhoU; pfam01895 409026008126 PhoU domain; Region: PhoU; pfam01895 409026008127 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 409026008128 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 409026008129 Walker A/P-loop; other site 409026008130 ATP binding site [chemical binding]; other site 409026008131 Q-loop/lid; other site 409026008132 ABC transporter signature motif; other site 409026008133 Walker B; other site 409026008134 D-loop; other site 409026008135 H-loop/switch region; other site 409026008136 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 409026008137 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 409026008138 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 409026008139 dimer interface [polypeptide binding]; other site 409026008140 conserved gate region; other site 409026008141 putative PBP binding loops; other site 409026008142 ABC-ATPase subunit interface; other site 409026008143 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 409026008144 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 409026008145 conserved gate region; other site 409026008146 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 409026008147 dimer interface [polypeptide binding]; other site 409026008148 conserved gate region; other site 409026008149 putative PBP binding loops; other site 409026008150 ABC-ATPase subunit interface; other site 409026008151 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 409026008152 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 409026008153 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 409026008154 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 409026008155 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 409026008156 Peptidase family M9 N-terminal; Region: Peptidase_M9_N; pfam08453 409026008157 Collagenase; Region: Peptidase_M9; pfam01752 409026008158 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 409026008159 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 409026008160 LysE type translocator; Region: LysE; cl00565 409026008161 Protein of unknown function (DUF1415); Region: DUF1415; cl01301 409026008162 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 409026008163 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 409026008164 active site 409026008165 RNA/DNA hybrid binding site [nucleotide binding]; other site 409026008166 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 409026008167 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 409026008168 interface (dimer of trimers) [polypeptide binding]; other site 409026008169 Substrate-binding/catalytic site; other site 409026008170 Zn-binding sites [ion binding]; other site 409026008171 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 409026008172 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 409026008173 active site 409026008174 Surface antigen; Region: Surface_Ag_2; cl01155 409026008175 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 409026008176 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 409026008177 Cytochrome c oxidase subunit IV; Region: Cyt_c_ox_IV; pfam12270 409026008178 Bacterial type II secretion system protein G; Region: GSPII_G; pfam08334 409026008179 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 409026008180 Transposase; Region: DEDD_Tnp_IS110; pfam01548 409026008181 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 409026008182 Transposase; Region: DEDD_Tnp_IS110; pfam01548 409026008183 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 409026008184 Domain of unknown function (DUF4365); Region: DUF4365; pfam14280 409026008185 Domain of unknown function (DUF4265); Region: DUF4265; pfam14085 409026008186 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 409026008187 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026008188 Walker A/P-loop; other site 409026008189 ATP binding site [chemical binding]; other site 409026008190 Q-loop/lid; other site 409026008191 ABC transporter signature motif; other site 409026008192 Walker B; other site 409026008193 D-loop; other site 409026008194 H-loop/switch region; other site 409026008195 ABC transporter; Region: ABC_tran_2; pfam12848 409026008196 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 facilitated...; Region: ABCF_EF-3; cd03221 409026008197 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 409026008198 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 409026008199 metal-binding site [ion binding] 409026008200 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 409026008201 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 409026008202 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 409026008203 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 409026008204 DNA binding residues [nucleotide binding] 409026008205 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 409026008206 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 409026008207 Protein of unknown function (DUF3180); Region: DUF3180; pfam11377 409026008208 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 409026008209 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026008210 NAD(P) binding site [chemical binding]; other site 409026008211 active site 409026008212 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026008213 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 409026008214 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 409026008215 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 409026008216 substrate binding site [chemical binding]; other site 409026008217 oxyanion hole (OAH) forming residues; other site 409026008218 trimer interface [polypeptide binding]; other site 409026008219 enoyl-CoA hydratase; Provisional; Region: PRK09076 409026008220 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 409026008221 substrate binding site [chemical binding]; other site 409026008222 oxyanion hole (OAH) forming residues; other site 409026008223 trimer interface [polypeptide binding]; other site 409026008224 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 409026008225 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 409026008226 active site 409026008227 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 409026008228 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 409026008229 tetrameric interface [polypeptide binding]; other site 409026008230 NAD binding site [chemical binding]; other site 409026008231 catalytic residues [active] 409026008232 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 409026008233 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 409026008234 dimer interface [polypeptide binding]; other site 409026008235 active site 409026008236 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl15700 409026008237 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026008238 homoserine O-succinyltransferase; Provisional; Region: PRK05368 409026008239 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 409026008240 proposed active site lysine [active] 409026008241 conserved cys residue [active] 409026008242 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 409026008243 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 409026008244 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026008245 NAD(P) binding site [chemical binding]; other site 409026008246 active site 409026008247 Surface antigen; Region: Surface_Ag_2; cl01155 409026008248 Bacterial protein of unknown function (DUF925); Region: DUF925; cl01435 409026008249 Bacterial protein of unknown function (DUF925); Region: DUF925; cl01435 409026008250 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 409026008251 acyl-CoA thioesterase II; Provisional; Region: PRK10526 409026008252 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 409026008253 active site 409026008254 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 409026008255 catalytic triad [active] 409026008256 dimer interface [polypeptide binding]; other site 409026008257 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 409026008258 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026008259 NAD(P) binding site [chemical binding]; other site 409026008260 active site 409026008261 UbiA prenyltransferase family; Region: UbiA; cl00337 409026008262 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; cl10556 409026008263 Cytochrome c552; Region: Cytochrom_C552; pfam02335 409026008264 NnrS protein; Region: NnrS; cl01258 409026008265 Global regulator protein family; Region: CsrA; cl00670 409026008266 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 409026008267 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 409026008268 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 409026008269 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026008270 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 409026008271 30S subunit binding site; other site 409026008272 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 409026008273 carbohydrate binding site [chemical binding]; other site 409026008274 alpha-1,6-glucosidases, pullulanase-type; Region: pullul_strch; TIGR02103 409026008275 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 409026008276 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 409026008277 Ca binding site [ion binding]; other site 409026008278 active site 409026008279 catalytic site [active] 409026008280 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 409026008281 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 409026008282 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 409026008283 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 409026008284 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 409026008285 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026008286 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026008287 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 409026008288 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 409026008289 Cupin domain; Region: Cupin_2; cl09118 409026008290 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 409026008291 OsmC-like protein; Region: OsmC; cl00767 409026008292 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 409026008293 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 409026008294 active site 409026008295 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 409026008296 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 409026008297 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 409026008298 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 409026008299 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 409026008300 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 409026008301 Phage Tail Collar Domain; Region: Collar; pfam07484 409026008302 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 409026008303 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl02184 409026008304 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 409026008305 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026008306 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 409026008307 Transposase; Region: DEDD_Tnp_IS110; pfam01548 409026008308 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 409026008309 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 409026008310 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 409026008311 putative active site [active] 409026008312 putative NTP binding site [chemical binding]; other site 409026008313 putative nucleic acid binding site [nucleotide binding]; other site 409026008314 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 409026008315 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 409026008316 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 409026008317 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 409026008318 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 409026008319 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 409026008320 DNA binding residues [nucleotide binding] 409026008321 putative dimer interface [polypeptide binding]; other site 409026008322 isovaleryl-CoA dehydrogenase; Region: PLN02519 409026008323 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 409026008324 substrate binding site [chemical binding]; other site 409026008325 FAD binding site [chemical binding]; other site 409026008326 catalytic base [active] 409026008327 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 409026008328 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 409026008329 gamma-carboxygeranoyl-CoA hydratase; Validated; Region: PRK05674 409026008330 substrate binding site [chemical binding]; other site 409026008331 oxyanion hole (OAH) forming residues; other site 409026008332 trimer interface [polypeptide binding]; other site 409026008333 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 409026008334 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 409026008335 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 409026008336 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 409026008337 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 409026008338 carboxyltransferase (CT) interaction site; other site 409026008339 biotinylation site [posttranslational modification]; other site 409026008340 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 409026008341 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 409026008342 active site 409026008343 catalytic residues [active] 409026008344 metal binding site [ion binding]; metal-binding site 409026008345 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 409026008346 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 409026008347 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 409026008348 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 409026008349 catalytic residues [active] 409026008350 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 409026008351 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 409026008352 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 409026008353 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 409026008354 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 409026008355 molybdopterin cofactor binding site; other site 409026008356 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 409026008357 molybdopterin cofactor binding site; other site 409026008358 Protein of unknown function (DUF3374); Region: DUF3374; cl11904 409026008359 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 409026008360 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 409026008361 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 409026008362 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 409026008363 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 409026008364 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 409026008365 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 409026008366 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 409026008367 Thymidine kinase; Region: TK; cl00631 409026008368 dipeptidyl carboxypeptidase II; Provisional; Region: PRK10280 409026008369 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 409026008370 active site 409026008371 Zn binding site [ion binding]; other site 409026008372 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 409026008373 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 409026008374 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 409026008375 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 409026008376 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 409026008377 Ligand binding site [chemical binding]; other site 409026008378 Electron transfer flavoprotein domain; Region: ETF; pfam01012 409026008379 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 409026008380 H-NS histone family; Region: Histone_HNS; pfam00816 409026008381 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 409026008382 active site 409026008383 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 409026008384 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 409026008385 active site 409026008386 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 409026008387 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 409026008388 active site 409026008389 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 409026008390 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 409026008391 homodimer interaction site [polypeptide binding]; other site 409026008392 cofactor binding site; other site 409026008393 putative acyl transferase; Provisional; Region: PRK10191 409026008394 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 409026008395 trimer interface [polypeptide binding]; other site 409026008396 active site 409026008397 substrate binding site [chemical binding]; other site 409026008398 CoA binding site [chemical binding]; other site 409026008399 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 409026008400 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 409026008401 Coenzyme A binding pocket [chemical binding]; other site 409026008402 Cupin domain; Region: Cupin_2; cl09118 409026008403 Protein of unknown function (DUF805); Region: DUF805; cl01224 409026008404 prolyl-tRNA synthetase; Provisional; Region: PRK09194 409026008405 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 of...; Region: ProRS_core_prok; cd00779 409026008406 dimer interface [polypeptide binding]; other site 409026008407 motif 1; other site 409026008408 active site 409026008409 motif 2; other site 409026008410 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 409026008411 putative deacylase active site [active] 409026008412 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 attaches...; Region: class_II_aaRS-like_core; cl00268 409026008413 active site 409026008414 motif 3; other site 409026008415 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 409026008416 anticodon binding site; other site 409026008417 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 409026008418 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 409026008419 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 409026008420 Walker A/P-loop; other site 409026008421 ATP binding site [chemical binding]; other site 409026008422 Q-loop/lid; other site 409026008423 ABC transporter signature motif; other site 409026008424 Walker B; other site 409026008425 D-loop; other site 409026008426 H-loop/switch region; other site 409026008427 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 409026008428 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 409026008429 putative ligand binding site [chemical binding]; other site 409026008430 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 409026008431 TM-ABC transporter signature motif; other site 409026008432 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 409026008433 TM-ABC transporter signature motif; other site 409026008434 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 409026008435 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 409026008436 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 409026008437 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 409026008438 Walker A/P-loop; other site 409026008439 ATP binding site [chemical binding]; other site 409026008440 Q-loop/lid; other site 409026008441 ABC transporter signature motif; other site 409026008442 Walker B; other site 409026008443 D-loop; other site 409026008444 H-loop/switch region; other site 409026008445 Porin subfamily; Region: Porin_2; pfam02530 409026008446 Sodium:solute symporter family; Region: SSF; cl00456 409026008447 PAS fold; Region: PAS_7; pfam12860 409026008448 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 409026008449 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 409026008450 ATP binding site [chemical binding]; other site 409026008451 Mg2+ binding site [ion binding]; other site 409026008452 G-X-G motif; other site 409026008453 Response regulator receiver domain; Region: Response_reg; pfam00072 409026008454 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 409026008455 active site 409026008456 phosphorylation site [posttranslational modification] 409026008457 intermolecular recognition site; other site 409026008458 dimerization interface [polypeptide binding]; other site 409026008459 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 409026008460 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 409026008461 active site 409026008462 phosphorylation site [posttranslational modification] 409026008463 intermolecular recognition site; other site 409026008464 dimerization interface [polypeptide binding]; other site 409026008465 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 409026008466 DNA binding residues [nucleotide binding] 409026008467 dimerization interface [polypeptide binding]; other site 409026008468 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 409026008469 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 409026008470 active site 409026008471 nucleophile elbow; other site 409026008472 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 409026008473 active site 409026008474 catalytic triad [active] 409026008475 oxyanion hole [active] 409026008476 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 409026008477 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 409026008478 NAD(P) binding site [chemical binding]; other site 409026008479 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026008480 Helix-turn-helix domains; Region: HTH; cl00088 409026008481 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 409026008482 putative effector binding pocket; other site 409026008483 dimerization interface [polypeptide binding]; other site 409026008484 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 409026008485 DoxX; Region: DoxX; cl00976 409026008486 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 409026008487 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 409026008488 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 409026008489 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 409026008490 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026008491 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; cl15357 409026008492 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026008493 metal binding site [ion binding]; metal-binding site 409026008494 active site 409026008495 I-site; other site 409026008496 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 409026008497 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 409026008498 Ligand Binding Site [chemical binding]; other site 409026008499 TilS substrate binding domain; Region: TilS; pfam09179 409026008500 B3/4 domain; Region: B3_4; cl11458 409026008501 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 409026008502 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 409026008503 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 409026008504 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 409026008505 generic binding surface II; other site 409026008506 generic binding surface I; other site 409026008507 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 409026008508 RNA/DNA hybrid binding site [nucleotide binding]; other site 409026008509 active site 409026008510 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 409026008511 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 409026008512 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 409026008513 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 biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 409026008514 active site 409026008515 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 409026008516 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 409026008517 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 409026008518 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; Region: LbH_LpxD; cd03352 409026008519 trimer interface [polypeptide binding]; other site 409026008520 active site 409026008521 UDP-GlcNAc binding site [chemical binding]; other site 409026008522 lipid binding site [chemical binding]; lipid-binding site 409026008523 periplasmic chaperone; Provisional; Region: PRK10780 409026008524 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 409026008525 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 409026008526 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 409026008527 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 409026008528 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 409026008529 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 409026008530 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 409026008531 Surface antigen; Region: Bac_surface_Ag; cl03097 409026008532 zinc metallopeptidase RseP; Provisional; Region: PRK10779 409026008533 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 409026008534 active site 409026008535 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 409026008536 protein binding site [polypeptide binding]; other site 409026008537 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 409026008538 protein binding site [polypeptide binding]; other site 409026008539 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 409026008540 putative substrate binding region [chemical binding]; other site 409026008541 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 409026008542 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 409026008543 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 409026008544 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 409026008545 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 409026008546 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 409026008547 catalytic residue [active] 409026008548 putative FPP diphosphate binding site; other site 409026008549 putative FPP binding hydrophobic cleft; other site 409026008550 dimer interface [polypeptide binding]; other site 409026008551 putative IPP diphosphate binding site; other site 409026008552 ribosome recycling factor; Reviewed; Region: frr; PRK00083 409026008553 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 409026008554 hinge region; other site 409026008555 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 409026008556 putative nucleotide binding site [chemical binding]; other site 409026008557 uridine monophosphate binding site [chemical binding]; other site 409026008558 homohexameric interface [polypeptide binding]; other site 409026008559 elongation factor Ts; Provisional; Region: tsf; PRK09377 409026008560 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 409026008561 Elongation factor TS; Region: EF_TS; pfam00889 409026008562 Elongation factor TS; Region: EF_TS; pfam00889 409026008563 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 409026008564 rRNA interaction site [nucleotide binding]; other site 409026008565 S8 interaction site; other site 409026008566 putative laminin-1 binding site; other site 409026008567 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 409026008568 active site 409026008569 PII uridylyl-transferase; Provisional; Region: PRK05007 409026008570 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 409026008571 metal binding triad; other site 409026008572 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 409026008573 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 409026008574 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 409026008575 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 409026008576 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 409026008577 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 409026008578 trimer interface [polypeptide binding]; other site 409026008579 active site 409026008580 substrate binding site [chemical binding]; other site 409026008581 CoA binding site [chemical binding]; other site 409026008582 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 409026008583 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 409026008584 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 409026008585 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 409026008586 putative active site [active] 409026008587 putative substrate binding site [chemical binding]; other site 409026008588 putative cosubstrate binding site; other site 409026008589 catalytic site [active] 409026008590 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 409026008591 tRNA pseudouridine isomerase C: Pseudouridine synthases catalyze the isomerization of specific uridines in an tRNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. TruC makes psi65 in tRNAs. This psi residue is not...; Region: PseudoU_synth_TruC; cd02563 409026008592 probable active site [active] 409026008593 Domain of unknown function, DUF446; Region: DUF446; cl01187 409026008594 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 409026008595 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 409026008596 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 409026008597 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 409026008598 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 409026008599 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; cl02380 409026008600 Syd protein; Region: Syd; cl06405 409026008601 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 409026008602 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 409026008603 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 409026008604 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026008605 Helix-turn-helix domains; Region: HTH; cl00088 409026008606 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 409026008607 putative substrate binding pocket [chemical binding]; other site 409026008608 putative dimerization interface [polypeptide binding]; other site 409026008609 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 409026008610 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 409026008611 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 409026008612 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 409026008613 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026008614 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026008615 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 409026008616 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 409026008617 active site 409026008618 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 409026008619 Acyl transferase domain; Region: Acyl_transf_1; cl08282 409026008620 Phosphopantetheine attachment site; Region: PP-binding; cl09936 409026008621 polyketide-type polyunsaturated fatty acid synthase PfaA; Region: omega_3_PfaA; TIGR02813 409026008622 Phosphopantetheine attachment site; Region: PP-binding; cl09936 409026008623 Phosphopantetheine attachment site; Region: PP-binding; cl09936 409026008624 Phosphopantetheine attachment site; Region: PP-binding; cl09936 409026008625 Phosphopantetheine attachment site; Region: PP-binding; cl09936 409026008626 Phosphopantetheine attachment site; Region: PP-binding; cl09936 409026008627 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 409026008628 putative NADP binding site [chemical binding]; other site 409026008629 active site 409026008630 Acyl transferase domain; Region: Acyl_transf_1; cl08282 409026008631 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 409026008632 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 409026008633 CHASE4 domain; Region: CHASE4; cl01308 409026008634 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026008635 metal binding site [ion binding]; metal-binding site 409026008636 active site 409026008637 I-site; other site 409026008638 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 409026008639 Helix-turn-helix domains; Region: HTH; cl00088 409026008640 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; cl01409 409026008641 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 409026008642 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 409026008643 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 409026008644 active site 409026008645 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 409026008646 Transposase; Region: DEDD_Tnp_IS110; pfam01548 409026008647 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 409026008648 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 409026008649 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 409026008650 ATP binding site [chemical binding]; other site 409026008651 Mg++ binding site [ion binding]; other site 409026008652 motif III; other site 409026008653 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 409026008654 nucleotide binding region [chemical binding]; other site 409026008655 ATP-binding site [chemical binding]; other site 409026008656 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 409026008657 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 409026008658 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 409026008659 metal binding site [ion binding]; metal-binding site 409026008660 putative dimer interface [polypeptide binding]; other site 409026008661 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 409026008662 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026008663 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026008664 Peptidase propeptide and YPEB domain; Region: PepSY; cl15480 409026008665 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 409026008666 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 409026008667 active site 409026008668 phosphorylation site [posttranslational modification] 409026008669 intermolecular recognition site; other site 409026008670 dimerization interface [polypeptide binding]; other site 409026008671 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 409026008672 DNA binding site [nucleotide binding] 409026008673 sensor protein PhoQ; Provisional; Region: PRK10815 409026008674 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 409026008675 ATP binding site [chemical binding]; other site 409026008676 Mg2+ binding site [ion binding]; other site 409026008677 G-X-G motif; other site 409026008678 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 409026008679 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 409026008680 Protein kinase domain; Region: Pkinase; pfam00069 409026008681 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 409026008682 active site 409026008683 ATP binding site [chemical binding]; other site 409026008684 substrate binding site [chemical binding]; other site 409026008685 activation loop (A-loop); other site 409026008686 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cl15691 409026008687 Protein of unknown function, DUF599; Region: DUF599; cl01575 409026008688 Protein of unknown function (DUF2496); Region: DUF2496; cl11670 409026008689 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 409026008690 PAS domain S-box; Region: sensory_box; TIGR00229 409026008691 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 409026008692 putative active site [active] 409026008693 heme pocket [chemical binding]; other site 409026008694 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026008695 metal binding site [ion binding]; metal-binding site 409026008696 active site 409026008697 I-site; other site 409026008698 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 409026008699 Acetylglutamate semialdehyde dehydrogenase [Amino acid transport and metabolism]; Region: ArgC; COG0002 409026008700 Surface antigen; Region: Surface_Ag_2; cl01155 409026008701 Uncharacterised protein family (UPF0014); Region: UPF0014; cl00424 409026008702 peptidase T; Region: peptidase-T; TIGR01882 409026008703 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 409026008704 metal binding site [ion binding]; metal-binding site 409026008705 dimer interface [polypeptide binding]; other site 409026008706 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026008707 NAD(P) binding site [chemical binding]; other site 409026008708 active site 409026008709 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 409026008710 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_27; cd04686 409026008711 nudix motif; other site 409026008712 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 409026008713 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 409026008714 DNA binding residues [nucleotide binding] 409026008715 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 409026008716 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 409026008717 translation initiation factor Sui1; Validated; Region: PRK06824 409026008718 The SUI1/eIF1 (eukaryotic initiation factor 1) fold is found in eukaryotes, archaea, and some bacteria and is thought to play an important role in accurate initiator codon recognition during translation initiation. This fold, which includes two...; Region: SUI1_eIF1; cl00229 409026008719 Predicted RNA interaction site [nucleotide binding]; other site 409026008720 putative binding site; other site 409026008721 Mutations affecting start-site selection; other site 409026008722 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 409026008723 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; cl00243 409026008724 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 409026008725 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 409026008726 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 409026008727 tartrate dehydrogenase; Provisional; Region: PRK08194 409026008728 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 409026008729 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 409026008730 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 409026008731 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 409026008732 Protein of unknown function (DUF423); Region: DUF423; cl01008 409026008733 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 409026008734 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 409026008735 Helix-turn-helix domains; Region: HTH; cl00088 409026008736 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 409026008737 dimerization interface [polypeptide binding]; other site 409026008738 substrate binding pocket [chemical binding]; other site 409026008739 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 409026008740 THUMP domain; Region: THUMP; cl12076 409026008741 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 409026008742 Ligand Binding Site [chemical binding]; other site 409026008743 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 409026008744 active site residue [active] 409026008745 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 409026008746 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 409026008747 ligand binding site [chemical binding]; other site 409026008748 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 409026008749 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 409026008750 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 409026008751 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 409026008752 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 409026008753 substrate binding pocket [chemical binding]; other site 409026008754 chain length determination region; other site 409026008755 substrate-Mg2+ binding site; other site 409026008756 catalytic residues [active] 409026008757 aspartate-rich region 1; other site 409026008758 active site lid residues [active] 409026008759 aspartate-rich region 2; other site 409026008760 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 409026008761 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 409026008762 TPP-binding site; other site 409026008763 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 409026008764 PYR/PP interface [polypeptide binding]; other site 409026008765 dimer interface [polypeptide binding]; other site 409026008766 TPP binding site [chemical binding]; other site 409026008767 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 409026008768 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 409026008769 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 409026008770 dimer interface [polypeptide binding]; other site 409026008771 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 409026008772 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 409026008773 L-lactate permease; Region: Lactate_perm; cl00701 409026008774 L-lactate permease; Region: Lactate_perm; cl00701 409026008775 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 409026008776 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 409026008777 FAD binding domain; Region: FAD_binding_4; pfam01565 409026008778 4Fe-4S binding domain; Region: Fer4; cl02805 409026008779 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 409026008780 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 409026008781 Cysteine-rich domain; Region: CCG; pfam02754 409026008782 Cysteine-rich domain; Region: CCG; pfam02754 409026008783 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 409026008784 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 409026008785 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 409026008786 Gram-negative bacterial tonB protein; Region: TonB; cl10048 409026008787 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026008788 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]; Region: CDC6; COG1474 409026008789 Mechanosensitive ion channel; Region: MS_channel; pfam00924 409026008790 Gram-negative bacterial tonB protein; Region: TonB; cl10048 409026008791 RNA polymerase sigma factor SigZ; Provisional; Region: PRK09637 409026008792 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 409026008793 DNA binding residues [nucleotide binding] 409026008794 Eukaryotic Glutathione Synthetase (eu-GS); catalyses the production of glutathione from gamma-glutamylcysteine and glycine in an ATP-dependent manner. Belongs to the ATP-grasp superfamily; Region: eu-GS; cl00170 409026008795 dimerization unit; other site 409026008796 glutathione (GSH) binding pocket [chemical binding]; other site 409026008797 active site residues [active] 409026008798 ATP binding pocket [chemical binding]; other site 409026008799 magnesium binding site [ion binding]; other site 409026008800 glycine rich loop; other site 409026008801 alanine rich loop; other site 409026008802 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 409026008803 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 409026008804 pyridoxal 5'-phosphate binding site [chemical binding]; other site 409026008805 homodimer interface [polypeptide binding]; other site 409026008806 catalytic residue [active] 409026008807 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 409026008808 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 409026008809 ATP binding site [chemical binding]; other site 409026008810 Mg++ binding site [ion binding]; other site 409026008811 motif III; other site 409026008812 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 409026008813 nucleotide binding region [chemical binding]; other site 409026008814 ATP-binding site [chemical binding]; other site 409026008815 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 409026008816 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 409026008817 PAS fold; Region: PAS_3; pfam08447 409026008818 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 409026008819 PAS domain S-box; Region: sensory_box; TIGR00229 409026008820 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 409026008821 putative active site [active] 409026008822 heme pocket [chemical binding]; other site 409026008823 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026008824 metal binding site [ion binding]; metal-binding site 409026008825 active site 409026008826 I-site; other site 409026008827 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 409026008828 OsmC-like protein; Region: OsmC; cl00767 409026008829 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 409026008830 active site 409026008831 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026008832 metal binding site [ion binding]; metal-binding site 409026008833 active site 409026008834 I-site; other site 409026008835 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 409026008836 HDOD domain; Region: HDOD; pfam08668 409026008837 putative protease; Provisional; Region: PRK15452 409026008838 Peptidase family U32; Region: Peptidase_U32; cl03113 409026008839 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 409026008840 Protein of unknown function (DUF3299); Region: DUF3299; cl01387 409026008841 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 409026008842 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 409026008843 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 409026008844 active site 409026008845 ferredoxin; Validated; Region: PRK07118 409026008846 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 409026008847 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 409026008848 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 409026008849 protein binding site [polypeptide binding]; other site 409026008850 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 409026008851 binding surface 409026008852 TPR motif; other site 409026008853 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 409026008854 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026008855 metal binding site [ion binding]; metal-binding site 409026008856 active site 409026008857 I-site; other site 409026008858 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 409026008859 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 409026008860 flap endonuclease-like protein; Provisional; Region: PRK09482 409026008861 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 409026008862 active site 409026008863 metal binding site 1 [ion binding]; metal-binding site 409026008864 putative 5' ssDNA interaction site; other site 409026008865 metal binding site 3; metal-binding site 409026008866 metal binding site 2 [ion binding]; metal-binding site 409026008867 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 409026008868 putative DNA binding site [nucleotide binding]; other site 409026008869 putative metal binding site [ion binding]; other site 409026008870 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 409026008871 ferrochelatase; Reviewed; Region: hemH; PRK00035 409026008872 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 409026008873 C-terminal domain interface [polypeptide binding]; other site 409026008874 active site 409026008875 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 409026008876 active site 409026008877 N-terminal domain interface [polypeptide binding]; other site 409026008878 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 409026008879 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026008880 Walker A motif; other site 409026008881 ATP binding site [chemical binding]; other site 409026008882 Walker B motif; other site 409026008883 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 409026008884 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 409026008885 Walker A motif; other site 409026008886 ATP binding site [chemical binding]; other site 409026008887 Walker B motif; other site 409026008888 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 409026008889 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 409026008890 catalytic residue [active] 409026008891 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 409026008892 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026008893 YGGT family; Region: YGGT; cl00508 409026008894 YGGT family; Region: YGGT; cl00508 409026008895 Uncharacterised ACR, YggU family COG1872; Region: DUF167; cl00811 409026008896 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 409026008897 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 409026008898 active site 409026008899 dimerization interface [polypeptide binding]; other site 409026008900 HemN family oxidoreductase; Provisional; Region: PRK05660 409026008901 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 409026008902 FeS/SAM binding site; other site 409026008903 HemN C-terminal region; Region: HemN_C; pfam06969 409026008904 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 409026008905 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026008906 Helix-turn-helix domains; Region: HTH; cl00088 409026008907 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 409026008908 putative effector binding pocket; other site 409026008909 dimerization interface [polypeptide binding]; other site 409026008910 Protein of unknown function (DUF2884); Region: DUF2884; cl08135 409026008911 Glutaminase; Region: Glutaminase; cl00907 409026008912 Protein with unknown function (DUF469); Region: DUF469; cl01237 409026008913 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 409026008914 S-adenosylmethionine binding site [chemical binding]; other site 409026008915 adenine DNA glycosylase; Provisional; Region: PRK10880 409026008916 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 409026008917 minor groove reading motif; other site 409026008918 helix-hairpin-helix signature motif; other site 409026008919 substrate binding pocket [chemical binding]; other site 409026008920 active site 409026008921 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 409026008922 DNA binding and oxoG recognition site [nucleotide binding] 409026008923 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 409026008924 YceI-like domain; Region: YceI; cl01001 409026008925 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 409026008926 Predicted nucleotide-binding protein containing TIR-like domain; Region: TIR-like; cl01740 409026008927 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 409026008928 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 409026008929 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 409026008930 putative active site [active] 409026008931 putative NTP binding site [chemical binding]; other site 409026008932 putative nucleic acid binding site [nucleotide binding]; other site 409026008933 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 409026008934 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; cl11420 409026008935 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 409026008936 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 409026008937 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 409026008938 active site 409026008939 dimer interface [polypeptide binding]; other site 409026008940 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 409026008941 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 409026008942 Putative carbohydrate binding domain; Region: CHB_HEX; cl03918 409026008943 N-acetyl-beta-hexosaminidase [Carbohydrate transport and metabolism]; Region: Chb; COG3525 409026008944 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 409026008945 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i) a...; Region: GH20_Sm-chitobiase-like; cd06569 409026008946 active site 409026008947 C-terminal Early set domain associated with the catalytic domain of chitobiase (also called N-acetylglucosaminidase); Region: E_set_Chitobiase_C; cd02847 409026008948 sensor kinase CusS; Provisional; Region: PRK09835 409026008949 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 409026008950 dimerization interface [polypeptide binding]; other site 409026008951 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 409026008952 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 409026008953 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 409026008954 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 409026008955 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 409026008956 SapC; Region: SapC; pfam07277 409026008957 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026008958 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026008959 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 409026008960 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026008961 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 409026008962 Transcriptional regulators [Transcription]; Region: PurR; COG1609 409026008963 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 409026008964 DNA binding site [nucleotide binding] 409026008965 domain linker motif; other site 409026008966 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 409026008967 putative dimerization interface [polypeptide binding]; other site 409026008968 putative ligand binding site [chemical binding]; other site 409026008969 Nitrogen regulatory protein P-II; Region: P-II; cl00412 409026008970 Type II transport protein GspH; Region: GspH; pfam12019 409026008971 Type II transport protein GspH; Region: GspH; pfam12019 409026008972 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 409026008973 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 409026008974 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 409026008975 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 409026008976 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 409026008977 LytB protein; Region: LYTB; cl00507 409026008978 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 409026008979 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 409026008980 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 409026008981 lipoprotein signal peptidase; Provisional; Region: PRK14787 409026008982 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 409026008983 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 409026008984 active site 409026008985 HIGH motif; other site 409026008986 nucleotide binding site [chemical binding]; other site 409026008987 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 409026008988 active site 409026008989 KMSKS motif; other site 409026008990 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 409026008991 tRNA binding surface [nucleotide binding]; other site 409026008992 anticodon binding site; other site 409026008993 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 409026008994 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 409026008995 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 409026008996 active site 409026008997 Riboflavin kinase; Region: Flavokinase; cl03312 409026008998 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 409026008999 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 409026009000 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 409026009001 dimerization interface [polypeptide binding]; other site 409026009002 putative DNA binding site [nucleotide binding]; other site 409026009003 putative Zn2+ binding site [ion binding]; other site 409026009004 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 409026009005 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions; Region: PA_M28_2; cd04815 409026009006 PA/protease or protease-like domain interface [polypeptide binding]; other site 409026009007 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 409026009008 metal binding site [ion binding]; metal-binding site 409026009009 Protein of unknown function (DUF328); Region: DUF328; cl01143 409026009010 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 409026009011 putative phosphoketolase; Provisional; Region: PRK05261 409026009012 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 409026009013 TPP-binding site; other site 409026009014 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 409026009015 XFP C-terminal domain; Region: XFP_C; pfam09363 409026009016 outer membrane protein A; Reviewed; Region: PRK10808 409026009017 Surface antigen; Region: Surface_Ag_2; cl01155 409026009018 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 409026009019 ligand binding site [chemical binding]; other site 409026009020 transaldolase-like protein; Provisional; Region: PTZ00411 409026009021 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 409026009022 active site 409026009023 dimer interface [polypeptide binding]; other site 409026009024 catalytic residue [active] 409026009025 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 409026009026 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 409026009027 active site 409026009028 dimer interface [polypeptide binding]; other site 409026009029 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 409026009030 dimer interface [polypeptide binding]; other site 409026009031 active site 409026009032 Protein of unknown function (DUF3545); Region: DUF3545; pfam12065 409026009033 Uncharacterized conserved protein [Function unknown]; Region: COG3945 409026009034 endonuclease IV; Provisional; Region: PRK01060 409026009035 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 409026009036 AP (apurinic/apyrimidinic) site pocket; other site 409026009037 DNA interaction; other site 409026009038 Metal-binding active site; metal-binding site 409026009039 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 409026009040 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 409026009041 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 409026009042 catalytic residue [active] 409026009043 homoserine kinase; Provisional; Region: PRK01212 409026009044 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 409026009045 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 409026009046 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 409026009047 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 409026009048 putative catalytic residues [active] 409026009049 putative nucleotide binding site [chemical binding]; other site 409026009050 putative aspartate binding site [chemical binding]; other site 409026009051 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 409026009052 dimer interface [polypeptide binding]; other site 409026009053 putative threonine allosteric regulatory site; other site 409026009054 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 409026009055 putative threonine allosteric regulatory site; other site 409026009056 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026009057 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 409026009058 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 409026009059 Trp repressor protein; Region: Trp_repressor; cl01121 409026009060 Cytochrome C'; Region: Cytochrom_C_2; cl01610 409026009061 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 409026009062 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 409026009063 30S subunit binding site; other site 409026009064 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 409026009065 Chorismate mutase type II; Region: CM_2; cl00693 409026009066 Prephenate dehydratase; Region: PDT; pfam00800 409026009067 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 409026009068 putative L-Phe binding site [chemical binding]; other site 409026009069 NeuB family; Region: NeuB; cl00496 409026009070 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 409026009071 Predicted membrane protein [Function unknown]; Region: COG3671 409026009072 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 409026009073 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 409026009074 FAD binding pocket [chemical binding]; other site 409026009075 FAD binding motif [chemical binding]; other site 409026009076 phosphate binding motif [ion binding]; other site 409026009077 beta-alpha-beta structure motif; other site 409026009078 NAD binding pocket [chemical binding]; other site 409026009079 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 409026009080 catalytic loop [active] 409026009081 iron binding site [ion binding]; other site 409026009082 hybrid cluster protein; Provisional; Region: PRK05290 409026009083 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 409026009084 ACS interaction site; other site 409026009085 CODH interaction site; other site 409026009086 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 409026009087 hybrid metal cluster; other site 409026009088 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 409026009089 Chorismate mutase type II; Region: CM_2; cl00693 409026009090 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026009091 NeuB family; Region: NeuB; cl00496 409026009092 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 409026009093 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 409026009094 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 409026009095 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 409026009096 RimM N-terminal domain; Region: RimM; pfam01782 409026009097 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 produce...; Region: PRCH; cl09959 409026009098 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 409026009099 signal recognition particle protein; Provisional; Region: PRK10867 409026009100 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 409026009101 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 409026009102 P loop; other site 409026009103 GTP binding site [chemical binding]; other site 409026009104 Signal peptide binding domain; Region: SRP_SPB; pfam02978 409026009105 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 409026009106 hypothetical protein; Provisional; Region: PRK11573 409026009107 Domain of unknown function DUF21; Region: DUF21; pfam01595 409026009108 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 409026009109 Transporter associated domain; Region: CorC_HlyC; cl08393 409026009110 Protein of unknown function (DUF962); Region: DUF962; cl01879 409026009111 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 409026009112 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 409026009113 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 409026009114 active site 409026009115 hydrophilic channel; other site 409026009116 dimerization interface [polypeptide binding]; other site 409026009117 catalytic residues [active] 409026009118 active site lid [active] 409026009119 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 409026009120 Recombination protein O N terminal; Region: RecO_N; pfam11967 409026009121 Recombination protein O C terminal; Region: RecO_C; pfam02565 409026009122 GTPase Era; Reviewed; Region: era; PRK00089 409026009123 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, possibly...; Region: Era; cd04163 409026009124 G1 box; other site 409026009125 GTP/Mg2+ binding site [chemical binding]; other site 409026009126 Switch I region; other site 409026009127 G2 box; other site 409026009128 Switch II region; other site 409026009129 G3 box; other site 409026009130 G4 box; other site 409026009131 G5 box; other site 409026009132 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 that...; Region: KH-I; cl00098 409026009133 ribonuclease III; Reviewed; Region: rnc; PRK00102 409026009134 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 409026009135 dimerization interface [polypeptide binding]; other site 409026009136 active site 409026009137 metal binding site [ion binding]; metal-binding site 409026009138 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 409026009139 dsRNA binding site [nucleotide binding]; other site 409026009140 signal peptidase I; Provisional; Region: PRK10861 409026009141 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 409026009142 Catalytic site [active] 409026009143 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 409026009144 Catalytic site [active] 409026009145 GTP-binding protein LepA; Provisional; Region: PRK05433 409026009146 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 409026009147 G1 box; other site 409026009148 putative GEF interaction site [polypeptide binding]; other site 409026009149 GTP/Mg2+ binding site [chemical binding]; other site 409026009150 Switch I region; other site 409026009151 G2 box; other site 409026009152 G3 box; other site 409026009153 Switch II region; other site 409026009154 G4 box; other site 409026009155 G5 box; other site 409026009156 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 409026009157 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 409026009158 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 409026009159 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 409026009160 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 409026009161 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 409026009162 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 409026009163 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 409026009164 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 409026009165 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 409026009166 DNA binding residues [nucleotide binding] 409026009167 L-aspartate oxidase; Provisional; Region: PRK09077 409026009168 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026009169 domain; Region: Succ_DH_flav_C; pfam02910 409026009170 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 409026009171 Helix-turn-helix domains; Region: HTH; cl00088 409026009172 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 409026009173 dimerization interface [polypeptide binding]; other site 409026009174 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 409026009175 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 409026009176 dimerization interface [polypeptide binding]; other site 409026009177 active site 409026009178 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 409026009179 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 409026009180 GAF domain; Region: GAF; cl00853 409026009181 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 409026009182 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 409026009183 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 409026009184 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 409026009185 putative active site [active] 409026009186 Ap4A binding site [chemical binding]; other site 409026009187 nudix motif; other site 409026009188 putative metal binding site [ion binding]; other site 409026009189 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 409026009190 putative DNA-binding cleft [nucleotide binding]; other site 409026009191 putative DNA clevage site; other site 409026009192 molecular lever; other site 409026009193 cyclase homology domain; Region: CHD; cd07302 409026009194 nucleotidyl binding site; other site 409026009195 metal binding site [ion binding]; metal-binding site 409026009196 dimer interface [polypeptide binding]; other site 409026009197 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 409026009198 Helix-turn-helix domains; Region: HTH; cl00088 409026009199 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 409026009200 dimerization interface [polypeptide binding]; other site 409026009201 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 409026009202 radical SAM protein, TIGR01212 family; Region: TIGR01212 409026009203 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 409026009204 FeS/SAM binding site; other site 409026009205 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 409026009206 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 409026009207 active site 409026009208 dimer interface [polypeptide binding]; other site 409026009209 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 409026009210 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 409026009211 active site 409026009212 FMN binding site [chemical binding]; other site 409026009213 substrate binding site [chemical binding]; other site 409026009214 3Fe-4S cluster binding site [ion binding]; other site 409026009215 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 409026009216 domain interface; other site 409026009217 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 409026009218 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 409026009219 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026009220 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026009221 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 409026009222 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 409026009223 ligand binding site [chemical binding]; other site 409026009224 flexible hinge region; other site 409026009225 Helix-turn-helix domains; Region: HTH; cl00088 409026009226 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 409026009227 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 409026009228 substrate binding site [chemical binding]; other site 409026009229 dimer interface [polypeptide binding]; other site 409026009230 ATP binding site [chemical binding]; other site 409026009231 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 409026009232 active site 409026009233 transcriptional regulator BetI; Validated; Region: PRK00767 409026009234 Helix-turn-helix domains; Region: HTH; cl00088 409026009235 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 409026009236 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 409026009237 tetrameric interface [polypeptide binding]; other site 409026009238 NAD binding site [chemical binding]; other site 409026009239 catalytic residues [active] 409026009240 choline dehydrogenase; Validated; Region: PRK02106 409026009241 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026009242 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 409026009243 BCCT family transporter; Region: BCCT; cl00569 409026009244 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 409026009245 Transcriptional regulators [Transcription]; Region: MarR; COG1846 409026009246 Helix-turn-helix domains; Region: HTH; cl00088 409026009247 Helix-turn-helix domains; Region: HTH; cl00088 409026009248 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 409026009249 Catalytic site [active] 409026009250 Nickel-containing superoxide dismutase; Region: Sod_Ni; cl07609 409026009251 Protein of unknown function (DUF2753); Region: DUF2753; pfam10952 409026009252 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 409026009253 Coenzyme A binding pocket [chemical binding]; other site 409026009254 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 409026009255 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 409026009256 Transposase; Region: DEDD_Tnp_IS110; pfam01548 409026009257 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 409026009258 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 409026009259 non-specific DNA binding site [nucleotide binding]; other site 409026009260 salt bridge; other site 409026009261 sequence-specific DNA binding site [nucleotide binding]; other site 409026009262 TIR domain; Region: TIR; cl02060 409026009263 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 409026009264 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Provisional; Region: PRK07164 409026009265 CobD/Cbib protein; Region: CobD_Cbib; cl00561 409026009266 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 409026009267 hypothetical protein; Provisional; Region: PRK10578 409026009268 UPF0126 domain; Region: UPF0126; pfam03458 409026009269 UPF0126 domain; Region: UPF0126; pfam03458 409026009270 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 409026009271 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 409026009272 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 409026009273 active site 409026009274 HIGH motif; other site 409026009275 dimer interface [polypeptide binding]; other site 409026009276 KMSKS motif; other site 409026009277 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; cl09940 409026009278 putative peptidase; Provisional; Region: PRK11649 409026009279 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 409026009280 Uncharacterised protein family (UPF0075); Region: UPF0075; cl04217 409026009281 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 409026009282 DNA binding site [nucleotide binding] 409026009283 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 409026009284 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 409026009285 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 409026009286 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026009287 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026009288 Alkaline phosphatase homologues; Region: alkPPc; smart00098 409026009289 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl12039 409026009290 dimer interface [polypeptide binding]; other site 409026009291 active site 409026009292 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 409026009293 amphipathic channel; other site 409026009294 Asn-Pro-Ala signature motifs; other site 409026009295 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 409026009296 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 409026009297 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 409026009298 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 409026009299 Cl- selectivity filter; other site 409026009300 Cl- binding residues [ion binding]; other site 409026009301 pore gating glutamate residue; other site 409026009302 dimer interface [polypeptide binding]; other site 409026009303 Cytochrome c; Region: Cytochrom_C; cl11414 409026009304 sulfite oxidase; Provisional; Region: PLN00177 409026009305 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 409026009306 Moco binding site; other site 409026009307 metal coordination site [ion binding]; other site 409026009308 dimerization interface [polypeptide binding]; other site 409026009309 Cytochrome c; Region: Cytochrom_C; cl11414 409026009310 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 409026009311 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 409026009312 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 409026009313 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 409026009314 ornithine cyclodeaminase; Validated; Region: PRK06141 409026009315 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026009316 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 409026009317 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 409026009318 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 409026009319 DNA binding residues [nucleotide binding] 409026009320 Uncharacterized conserved protein [Function unknown]; Region: COG3595 409026009321 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026009322 Helix-turn-helix domains; Region: HTH; cl00088 409026009323 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 409026009324 dimerization interface [polypeptide binding]; other site 409026009325 Peptidase S8 family domain, uncharacterized subfamily 3; Region: Peptidases_S8_3; cd04852 409026009326 active site 409026009327 catalytic triad [active] 409026009328 PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases. This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease from...; Region: PA_subtilisin_like; cd02120 409026009329 PA/protease or protease-like domain interface [polypeptide binding]; other site 409026009330 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 409026009331 catalytic residues [active] 409026009332 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 409026009333 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; cl09940 409026009334 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 409026009335 active site 409026009336 uracil binding [chemical binding]; other site 409026009337 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 409026009338 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 409026009339 active site 409026009340 Zn binding site [ion binding]; other site 409026009341 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 409026009342 synthetase active site [active] 409026009343 NTP binding site [chemical binding]; other site 409026009344 metal binding site [ion binding]; metal-binding site 409026009345 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 409026009346 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 409026009347 putative C-terminal domain interface [polypeptide binding]; other site 409026009348 putative GSH binding site (G-site) [chemical binding]; other site 409026009349 putative dimer interface [polypeptide binding]; other site 409026009350 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 409026009351 dimer interface [polypeptide binding]; other site 409026009352 substrate binding pocket (H-site) [chemical binding]; other site 409026009353 N-terminal domain interface [polypeptide binding]; other site 409026009354 Bacterial membrane flanked domain; Region: DUF304; cl01348 409026009355 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 409026009356 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 409026009357 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 409026009358 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 409026009359 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 409026009360 malate dehydrogenase; Provisional; Region: PRK13529 409026009361 Malic enzyme, N-terminal domain; Region: malic; pfam00390 409026009362 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 409026009363 NAD(P) binding site [chemical binding]; other site 409026009364 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 protein; Region: Hint; cl02647 409026009365 thioester formation/cholesterol transfer; other site 409026009366 Protein of unknown function (DUF3069); Region: DUF3069; pfam11269 409026009367 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026009368 metal binding site [ion binding]; metal-binding site 409026009369 active site 409026009370 I-site; other site 409026009371 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 409026009372 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 409026009373 Protein of unknown function (DUF1458); Region: DUF1458; cl01328 409026009374 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 409026009375 catalytic residues [active] 409026009376 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 409026009377 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 409026009378 catalytic residues [active] 409026009379 Uncharacterized protein predicted to be involved in C-type cytochrome biogenesis [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4233 409026009380 LysE type translocator; Region: LysE; cl00565 409026009381 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 409026009382 DsbD alpha interface [polypeptide binding]; other site 409026009383 catalytic residues [active] 409026009384 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 409026009385 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 409026009386 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 409026009387 S-adenosylmethionine binding site [chemical binding]; other site 409026009388 peptide chain release factor 1; Validated; Region: prfA; PRK00591 409026009389 RF-1 domain; Region: RF-1; cl02875 409026009390 RF-1 domain; Region: RF-1; cl02875 409026009391 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 409026009392 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 409026009393 tRNA; other site 409026009394 putative tRNA binding site [nucleotide binding]; other site 409026009395 putative NADP binding site [chemical binding]; other site 409026009396 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 409026009397 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 409026009398 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 409026009399 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 409026009400 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 409026009401 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK04923 409026009402 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 409026009403 Helix-turn-helix domains; Region: HTH; cl00088 409026009404 DNA binding site [nucleotide binding] 409026009405 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 409026009406 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 409026009407 heme-binding residues [chemical binding]; other site 409026009408 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 409026009409 GTP-binding protein YchF; Reviewed; Region: PRK09601 409026009410 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 409026009411 G1 box; other site 409026009412 GTP/Mg2+ binding site [chemical binding]; other site 409026009413 Switch I region; other site 409026009414 G2 box; other site 409026009415 Switch II region; other site 409026009416 G3 box; other site 409026009417 G4 box; other site 409026009418 G5 box; other site 409026009419 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 409026009420 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 409026009421 putative active site [active] 409026009422 catalytic residue [active] 409026009423 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 409026009424 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026009425 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 409026009426 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 409026009427 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 409026009428 FeS/SAM binding site; other site 409026009429 TRAM domain; Region: TRAM; cl01282 409026009430 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 409026009431 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026009432 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 409026009433 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 409026009434 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 409026009435 Transporter associated domain; Region: CorC_HlyC; cl08393 409026009436 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 409026009437 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 409026009438 putative active site [active] 409026009439 catalytic triad [active] 409026009440 putative dimer interface [polypeptide binding]; other site 409026009441 Vibrio chemotaxis protein N terminus; Region: MCP_N; pfam05581 409026009442 Cache domain; Region: Cache_1; pfam02743 409026009443 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 409026009444 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 409026009445 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 409026009446 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 409026009447 hypothetical protein; Provisional; Region: PRK11032 409026009448 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 409026009449 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 409026009450 HIGH motif; other site 409026009451 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 409026009452 active site 409026009453 KMSKS motif; other site 409026009454 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 409026009455 tRNA binding surface [nucleotide binding]; other site 409026009456 Lipopolysaccharide-assembly; Region: LptE; cl01125 409026009457 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 409026009458 DNA polymerase III, delta subunit; Region: holA; TIGR01128 409026009459 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 409026009460 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 409026009461 active site 409026009462 (T/H)XGH motif; other site 409026009463 Domain of unknown function DUF143; Region: DUF143; cl00519 409026009464 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 409026009465 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 409026009466 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 409026009467 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 409026009468 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 409026009469 lytic murein transglycosylase; Region: MltB_2; TIGR02283 409026009470 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 409026009471 N-acetyl-D-glucosamine binding site [chemical binding]; other site 409026009472 rare lipoprotein A; Provisional; Region: PRK10672 409026009473 rare lipoprotein A; Region: rlpA; TIGR00413 409026009474 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 409026009475 Sporulation related domain; Region: SPOR; cl10051 409026009476 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 409026009477 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 409026009478 Protein of unknown function (DUF493); Region: DUF493; cl01102 409026009479 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 409026009480 lipoyl synthase; Provisional; Region: PRK05481 409026009481 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 409026009482 FeS/SAM binding site; other site 409026009483 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 409026009484 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 409026009485 Coenzyme A binding pocket [chemical binding]; other site 409026009486 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 409026009487 DNA polymerase III psi subunit; Region: DNA_III_psi; cl11436 409026009488 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cd00413 409026009489 active site 409026009490 catalytic residues [active] 409026009491 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 409026009492 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 409026009493 Clp amino terminal domain; Region: Clp_N; pfam02861 409026009494 Clp amino terminal domain; Region: Clp_N; pfam02861 409026009495 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026009496 Walker A motif; other site 409026009497 ATP binding site [chemical binding]; other site 409026009498 Walker B motif; other site 409026009499 arginine finger; other site 409026009500 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026009501 Walker A motif; other site 409026009502 ATP binding site [chemical binding]; other site 409026009503 Walker B motif; other site 409026009504 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 409026009505 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 409026009506 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 409026009507 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 409026009508 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 409026009509 RNA binding surface [nucleotide binding]; other site 409026009510 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 and...; Region: PseudoU_synth_RluCD_like; cd02869 409026009511 active site 409026009512 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 409026009513 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 409026009514 active site 409026009515 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 409026009516 Protein export membrane protein; Region: SecD_SecF; cl14618 409026009517 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 409026009518 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 409026009519 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 409026009520 N-terminal plug; other site 409026009521 ligand-binding site [chemical binding]; other site 409026009522 Helix-turn-helix domains; Region: HTH; cl00088 409026009523 Peptidase family M48; Region: Peptidase_M48; cl12018 409026009524 Gram-negative bacterial tonB protein; Region: TonB; cl10048 409026009525 NeuB family; Region: NeuB; cl00496 409026009526 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 409026009527 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 409026009528 binding surface 409026009529 TPR motif; other site 409026009530 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 409026009531 binding surface 409026009532 TPR motif; other site 409026009533 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 409026009534 Nitrogen regulatory protein P-II; Region: P-II; cl00412 409026009535 Isochorismatase family; Region: Isochorismatase; pfam00857 409026009536 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 409026009537 catalytic triad [active] 409026009538 dimer interface [polypeptide binding]; other site 409026009539 conserved cis-peptide bond; other site 409026009540 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; cl10556 409026009541 Cytochrome c552; Region: Cytochrom_C552; pfam02335 409026009542 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 409026009543 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 409026009544 Histidine kinase; Region: HisKA_3; pfam07730 409026009545 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 409026009546 transcriptional regulator NarL; Provisional; Region: PRK10651 409026009547 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 409026009548 active site 409026009549 phosphorylation site [posttranslational modification] 409026009550 intermolecular recognition site; other site 409026009551 dimerization interface [polypeptide binding]; other site 409026009552 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 409026009553 DNA binding residues [nucleotide binding] 409026009554 dimerization interface [polypeptide binding]; other site 409026009555 Uncharacterised protein family (UPF0231); Region: UPF0231; cl11474 409026009556 PAS domain S-box; Region: sensory_box; TIGR00229 409026009557 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 409026009558 putative active site [active] 409026009559 heme pocket [chemical binding]; other site 409026009560 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 409026009561 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026009562 Walker A motif; other site 409026009563 ATP binding site [chemical binding]; other site 409026009564 Walker B motif; other site 409026009565 arginine finger; other site 409026009566 Helix-turn-helix domains; Region: HTH; cl00088 409026009567 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 409026009568 4Fe-4S binding domain; Region: Fer4_5; pfam12801 409026009569 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 409026009570 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 409026009571 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 409026009572 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 409026009573 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 409026009574 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 409026009575 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026009576 Walker A/P-loop; other site 409026009577 ATP binding site [chemical binding]; other site 409026009578 Q-loop/lid; other site 409026009579 ABC transporter signature motif; other site 409026009580 Walker B; other site 409026009581 D-loop; other site 409026009582 H-loop/switch region; other site 409026009583 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 409026009584 ChuX-like family; Region: DUF1008; cl01509 409026009585 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 409026009586 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 409026009587 N-terminal plug; other site 409026009588 ligand-binding site [chemical binding]; other site 409026009589 Gram-negative bacterial tonB protein; Region: TonB; cl10048 409026009590 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 409026009591 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 409026009592 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 409026009593 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 409026009594 putative hemin binding site; other site 409026009595 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 409026009596 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 409026009597 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 409026009598 ABC-ATPase subunit interface; other site 409026009599 dimer interface [polypeptide binding]; other site 409026009600 putative PBP binding regions; other site 409026009601 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 409026009602 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 409026009603 Walker A/P-loop; other site 409026009604 ATP binding site [chemical binding]; other site 409026009605 Q-loop/lid; other site 409026009606 ABC transporter signature motif; other site 409026009607 Walker B; other site 409026009608 D-loop; other site 409026009609 H-loop/switch region; other site 409026009610 coproporphyrinogen III oxidase; Provisional; Region: PRK09058 409026009611 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 409026009612 FeS/SAM binding site; other site 409026009613 Protein of unknown function (DUF2956); Region: DUF2956; pfam11169 409026009614 Periplasmic nitrate reductase protein NapE; Region: NapE; cl01848 409026009615 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl09485 409026009616 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 409026009617 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 409026009618 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 409026009619 molybdopterin cofactor binding site [chemical binding]; other site 409026009620 substrate binding site [chemical binding]; other site 409026009621 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 409026009622 molybdopterin cofactor binding site; other site 409026009623 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 409026009624 hypothetical protein; Provisional; Region: PRK06771 409026009625 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 409026009626 trimer interface [polypeptide binding]; other site 409026009627 active site 409026009628 substrate binding site [chemical binding]; other site 409026009629 CoA binding site [chemical binding]; other site 409026009630 Predicted membrane protein (DUF2154); Region: DUF2154; cl12089 409026009631 Protein of unknown function (DUF465); Region: DUF465; cl01070 409026009632 Uncharacterised protein family UPF0547; Region: UPF0547; pfam10571 409026009633 TM2 domain; Region: TM2; cl00984 409026009634 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 409026009635 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 409026009636 active site 409026009637 phosphorylation site [posttranslational modification] 409026009638 intermolecular recognition site; other site 409026009639 dimerization interface [polypeptide binding]; other site 409026009640 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 409026009641 DNA binding site [nucleotide binding] 409026009642 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 409026009643 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 409026009644 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 409026009645 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 409026009646 ATP binding site [chemical binding]; other site 409026009647 Mg2+ binding site [ion binding]; other site 409026009648 G-X-G motif; other site 409026009649 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 409026009650 putative deacylase active site [active] 409026009651 Helix-turn-helix domains; Region: HTH; cl00088 409026009652 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 409026009653 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 409026009654 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 409026009655 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 409026009656 Helix-turn-helix domains; Region: HTH; cl00088 409026009657 DNA binding site [nucleotide binding] 409026009658 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 409026009659 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 409026009660 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 409026009661 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026009662 Cupin domain; Region: Cupin_2; cl09118 409026009663 Helix-turn-helix domain; Region: HTH_18; pfam12833 409026009664 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 409026009665 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 409026009666 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 409026009667 Gram-negative bacterial tonB protein; Region: TonB; cl10048 409026009668 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026009669 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026009670 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 409026009671 Predicted permease; Region: DUF318; cl00487 409026009672 Predicted permease; Region: DUF318; cl00487 409026009673 Domain of unknown function; Region: DUF331; cl01149 409026009674 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 409026009675 EamA-like transporter family; Region: EamA; cl01037 409026009676 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 409026009677 DNA-binding site [nucleotide binding]; DNA binding site 409026009678 RNA-binding motif; other site 409026009679 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 409026009680 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 409026009681 putative active site [active] 409026009682 catalytic site [active] 409026009683 putative substrate binding site [chemical binding]; other site 409026009684 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 409026009685 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 409026009686 active site 409026009687 Pirin-related protein [General function prediction only]; Region: COG1741 409026009688 Cupin domain; Region: Cupin_2; cl09118 409026009689 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 409026009690 Surface antigen; Region: Bac_surface_Ag; cl03097 409026009691 MatE; Region: MatE; cl10513 409026009692 Helix-turn-helix domains; Region: HTH; cl00088 409026009693 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 409026009694 dimerization interface [polypeptide binding]; other site 409026009695 CHASE domain; Region: CHASE; cl01369 409026009696 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026009697 metal binding site [ion binding]; metal-binding site 409026009698 active site 409026009699 I-site; other site 409026009700 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 409026009701 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 409026009702 catalytic residues [active] 409026009703 hinge region; other site 409026009704 alpha helical domain; other site 409026009705 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 409026009706 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 409026009707 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 409026009708 Imelysin; Region: Peptidase_M75; cl09159 409026009709 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 409026009710 Major Facilitator Superfamily; Region: MFS_1; pfam07690 409026009711 putative substrate translocation pore; other site 409026009712 Protein of unknown function (DUF2806); Region: DUF2806; cl12560 409026009713 Protein of unknown function (DUF419); Region: DUF419; cl15265 409026009714 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 409026009715 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 409026009716 ligand-binding site [chemical binding]; other site 409026009717 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; cl15357 409026009718 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; cl15357 409026009719 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; cl15357 409026009720 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; cl15357 409026009721 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 409026009722 CysN_ATPS subfamily. CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which...; Region: CysN_ATPS; cd04166 409026009723 CysD dimerization site [polypeptide binding]; other site 409026009724 G1 box; other site 409026009725 putative GEF interaction site [polypeptide binding]; other site 409026009726 GTP/Mg2+ binding site [chemical binding]; other site 409026009727 Switch I region; other site 409026009728 G2 box; other site 409026009729 G3 box; other site 409026009730 Switch II region; other site 409026009731 G4 box; other site 409026009732 G5 box; other site 409026009733 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 409026009734 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 409026009735 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 409026009736 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 409026009737 Active Sites [active] 409026009738 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 409026009739 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 409026009740 dimerization interface [polypeptide binding]; other site 409026009741 substrate binding site [chemical binding]; other site 409026009742 active site 409026009743 calcium binding site [ion binding]; other site 409026009744 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 409026009745 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 409026009746 ATP binding site [chemical binding]; other site 409026009747 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 409026009748 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 409026009749 ligand binding site [chemical binding]; other site 409026009750 active site 409026009751 UGI interface [polypeptide binding]; other site 409026009752 catalytic site [active] 409026009753 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 409026009754 LysE type translocator; Region: LysE; cl00565 409026009755 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 409026009756 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 409026009757 Ycf46; Provisional; Region: ycf46; CHL00195 409026009758 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026009759 Walker A motif; other site 409026009760 ATP binding site [chemical binding]; other site 409026009761 Walker B motif; other site 409026009762 arginine finger; other site 409026009763 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 409026009764 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 409026009765 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 409026009766 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026009767 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 409026009768 glycerate dehydrogenase; Provisional; Region: PRK06487 409026009769 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026009770 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 409026009771 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 409026009772 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 409026009773 putative metal binding site [ion binding]; other site 409026009774 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 409026009775 HSP70 interaction site [polypeptide binding]; other site 409026009776 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 409026009777 Substrate binding site; other site 409026009778 metal-binding site 409026009779 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cl15691 409026009780 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 409026009781 OstA-like protein; Region: OstA; cl00844 409026009782 Organic solvent tolerance protein; Region: OstA_C; pfam04453 409026009783 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 409026009784 SurA N-terminal domain; Region: SurA_N; pfam09312 409026009785 PPIC-type PPIASE domain; Region: Rotamase; cl08278 409026009786 PPIC-type PPIASE domain; Region: Rotamase; cl08278 409026009787 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 409026009788 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 409026009789 Protein of unknown function (DUF525); Region: DUF525; cl01119 409026009790 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 409026009791 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 409026009792 active site 409026009793 metal binding site [ion binding]; metal-binding site 409026009794 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 409026009795 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 409026009796 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 409026009797 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 409026009798 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 409026009799 NADP+ binding site [chemical binding]; other site 409026009800 folate binding site [chemical binding]; other site 409026009801 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 409026009802 Uncharacterized conserved protein [Function unknown]; Region: COG2966 409026009803 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 409026009804 GTPase CgtA; Reviewed; Region: obgE; PRK12298 409026009805 GTP1/OBG; Region: GTP1_OBG; pfam01018 409026009806 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 409026009807 G1 box; other site 409026009808 GTP/Mg2+ binding site [chemical binding]; other site 409026009809 Switch I region; other site 409026009810 G2 box; other site 409026009811 G3 box; other site 409026009812 Switch II region; other site 409026009813 G4 box; other site 409026009814 G5 box; other site 409026009815 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 409026009816 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 409026009817 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 409026009818 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 409026009819 substrate binding pocket [chemical binding]; other site 409026009820 chain length determination region; other site 409026009821 substrate-Mg2+ binding site; other site 409026009822 catalytic residues [active] 409026009823 aspartate-rich region 1; other site 409026009824 active site lid residues [active] 409026009825 aspartate-rich region 2; other site 409026009826 malate dehydrogenase; Provisional; Region: PRK05086 409026009827 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 409026009828 NAD binding site [chemical binding]; other site 409026009829 dimerization interface [polypeptide binding]; other site 409026009830 Substrate binding site [chemical binding]; other site 409026009831 arginine repressor; Provisional; Region: PRK05066 409026009832 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 409026009833 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 409026009834 Cupin domain; Region: Cupin_2; cl09118 409026009835 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 409026009836 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 409026009837 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 409026009838 Walker A/P-loop; other site 409026009839 ATP binding site [chemical binding]; other site 409026009840 Q-loop/lid; other site 409026009841 ABC transporter signature motif; other site 409026009842 Walker B; other site 409026009843 D-loop; other site 409026009844 H-loop/switch region; other site 409026009845 TOBE domain; Region: TOBE_2; cl01440 409026009846 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 409026009847 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 409026009848 dimer interface [polypeptide binding]; other site 409026009849 conserved gate region; other site 409026009850 putative PBP binding loops; other site 409026009851 ABC-ATPase subunit interface; other site 409026009852 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 409026009853 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 409026009854 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 409026009855 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 409026009856 putative C-terminal domain interface [polypeptide binding]; other site 409026009857 putative GSH binding site (G-site) [chemical binding]; other site 409026009858 putative dimer interface [polypeptide binding]; other site 409026009859 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 409026009860 substrate binding pocket (H-site) [chemical binding]; other site 409026009861 N-terminal domain interface [polypeptide binding]; other site 409026009862 ferredoxin-NADP reductase; Provisional; Region: PRK10926 409026009863 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 409026009864 FAD binding pocket [chemical binding]; other site 409026009865 FAD binding motif [chemical binding]; other site 409026009866 phosphate binding motif [ion binding]; other site 409026009867 beta-alpha-beta structure motif; other site 409026009868 NAD binding pocket [chemical binding]; other site 409026009869 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 409026009870 catalytic core [active] 409026009871 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 409026009872 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 409026009873 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026009874 Walker A/P-loop; other site 409026009875 ATP binding site [chemical binding]; other site 409026009876 Q-loop/lid; other site 409026009877 ABC transporter signature motif; other site 409026009878 Walker B; other site 409026009879 D-loop; other site 409026009880 H-loop/switch region; other site 409026009881 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 409026009882 Polysulphide reductase, NrfD; Region: NrfD; cl01295 409026009883 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 409026009884 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 409026009885 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 409026009886 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026009887 Helix-turn-helix domains; Region: HTH; cl00088 409026009888 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026009889 Helix-turn-helix domains; Region: HTH; cl00088 409026009890 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 409026009891 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 409026009892 Helix-turn-helix domains; Region: HTH; cl00088 409026009893 LysR family transcriptional regulator; Provisional; Region: PRK14997 409026009894 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 409026009895 putative effector binding pocket; other site 409026009896 dimerization interface [polypeptide binding]; other site 409026009897 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 409026009898 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 409026009899 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 409026009900 substrate binding pocket [chemical binding]; other site 409026009901 membrane-bound complex binding site; other site 409026009902 hinge residues; other site 409026009903 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 409026009904 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 409026009905 RNA binding surface [nucleotide binding]; other site 409026009906 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 409026009907 active site 409026009908 uracil binding [chemical binding]; other site 409026009909 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 409026009910 active site 409026009911 substrate binding pocket [chemical binding]; other site 409026009912 dimer interface [polypeptide binding]; other site 409026009913 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 409026009914 PPIC-type PPIASE domain; Region: Rotamase; cl08278 409026009915 N-formylglutamate amidohydrolase; Region: FGase; cl01522 409026009916 conserved hypothetical protein; Region: QEGLA; TIGR02421 409026009917 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 409026009918 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 409026009919 glutathione synthetase; Provisional; Region: PRK12458 409026009920 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 409026009921 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 409026009922 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 409026009923 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 409026009924 N-terminal plug; other site 409026009925 ligand-binding site [chemical binding]; other site 409026009926 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 409026009927 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 409026009928 Cytochrome c; Region: Cytochrom_C; cl11414 409026009929 Cytochrome c; Region: Cytochrom_C; cl11414 409026009930 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 409026009931 Cytochrome c; Region: Cytochrom_C; cl11414 409026009932 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 409026009933 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 409026009934 Low-spin heme binding site [chemical binding]; other site 409026009935 D-pathway; other site 409026009936 Putative water exit pathway; other site 409026009937 Binuclear center (active site) [active] 409026009938 K-pathway; other site 409026009939 Putative proton exit pathway; other site 409026009940 Cytochrome c; Region: Cytochrom_C; cl11414 409026009941 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 409026009942 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 409026009943 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 409026009944 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 409026009945 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 409026009946 Helix-turn-helix domains; Region: HTH; cl00088 409026009947 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026009948 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 409026009949 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 409026009950 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 409026009951 dimer interface [polypeptide binding]; other site 409026009952 conserved gate region; other site 409026009953 putative PBP binding loops; other site 409026009954 ABC-ATPase subunit interface; other site 409026009955 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 409026009956 dimer interface [polypeptide binding]; other site 409026009957 conserved gate region; other site 409026009958 putative PBP binding loops; other site 409026009959 ABC-ATPase subunit interface; other site 409026009960 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 409026009961 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026009962 Walker A/P-loop; other site 409026009963 ATP binding site [chemical binding]; other site 409026009964 Q-loop/lid; other site 409026009965 ABC transporter signature motif; other site 409026009966 Walker B; other site 409026009967 D-loop; other site 409026009968 H-loop/switch region; other site 409026009969 TOBE domain; Region: TOBE_2; cl01440 409026009970 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 409026009971 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 409026009972 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 409026009973 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 409026009974 Peptidase C26; Region: Peptidase_C26; pfam07722 409026009975 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 409026009976 catalytic triad [active] 409026009977 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 409026009978 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 409026009979 non-specific DNA binding site [nucleotide binding]; other site 409026009980 salt bridge; other site 409026009981 sequence-specific DNA binding site [nucleotide binding]; other site 409026009982 Cupin domain; Region: Cupin_2; cl09118 409026009983 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026009984 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 409026009985 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 409026009986 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 409026009987 Coenzyme A binding pocket [chemical binding]; other site 409026009988 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 409026009989 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 409026009990 putative acetyltransferase YhhY; Provisional; Region: PRK10140 409026009991 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 409026009992 Coenzyme A binding pocket [chemical binding]; other site 409026009993 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 409026009994 Helix-turn-helix domain; Region: HTH_18; pfam12833 409026009995 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 409026009996 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 409026009997 SCP-2 sterol transfer family; Region: SCP2; cl01225 409026009998 Integrase core domain; Region: rve; cl01316 409026009999 Helix-turn-helix domains; Region: HTH; cl00088 409026010000 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 409026010001 Domain of unknown function DUF1829; Region: DUF1829; pfam08862 409026010002 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 409026010003 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 409026010004 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 409026010005 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 409026010006 NAD(P) binding site [chemical binding]; other site 409026010007 catalytic residues [active] 409026010008 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 409026010009 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 409026010010 inhibitor-cofactor binding pocket; inhibition site 409026010011 pyridoxal 5'-phosphate binding site [chemical binding]; other site 409026010012 catalytic residue [active] 409026010013 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 409026010014 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 409026010015 tetrameric interface [polypeptide binding]; other site 409026010016 NAD binding site [chemical binding]; other site 409026010017 catalytic residues [active] 409026010018 Cupin domain; Region: Cupin_2; cl09118 409026010019 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 409026010020 Protein of unknown function (DUF3634); Region: DUF3634; pfam12321 409026010021 Domain of unknown function (DUF368); Region: DUF368; cl00893 409026010022 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 409026010023 CoenzymeA binding site [chemical binding]; other site 409026010024 subunit interaction site [polypeptide binding]; other site 409026010025 PHB binding site; other site 409026010026 Helix-turn-helix domains; Region: HTH; cl00088 409026010027 Transcriptional activator [Transcription]; Region: ChrR; COG3806 409026010028 Cupin domain; Region: Cupin_2; cl09118 409026010029 Cupin domain; Region: Cupin_2; cl09118 409026010030 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 409026010031 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 409026010032 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 409026010033 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 409026010034 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 409026010035 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 409026010036 active site 409026010037 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 409026010038 Major Facilitator Superfamily; Region: MFS_1; pfam07690 409026010039 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 409026010040 putative substrate translocation pore; other site 409026010041 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 409026010042 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 409026010043 active site 409026010044 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 409026010045 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 409026010046 ATP binding site [chemical binding]; other site 409026010047 Mg++ binding site [ion binding]; other site 409026010048 motif III; other site 409026010049 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 409026010050 nucleotide binding region [chemical binding]; other site 409026010051 ATP-binding site [chemical binding]; other site 409026010052 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 409026010053 putative catalytic residues [active] 409026010054 Protein of unknown function (DUF2913); Region: DUF2913; pfam11140 409026010055 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 409026010056 active site 409026010057 catalytic residues [active] 409026010058 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 409026010059 PA/protease or protease-like domain interface [polypeptide binding]; other site 409026010060 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 409026010061 catalytic residues [active] 409026010062 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 409026010063 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 of...; Region: Band_7_flotillin; cd03399 409026010064 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 409026010065 DsrE/DsrF-like family; Region: DrsE; cl00672 409026010066 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 409026010067 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 409026010068 active site 409026010069 Zn binding site [ion binding]; other site 409026010070 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 409026010071 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 409026010072 Coenzyme A binding pocket [chemical binding]; other site 409026010073 Protein of unknown function (DUF2960); Region: DUF2960; pfam11173 409026010074 RDD family; Region: RDD; cl00746 409026010075 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 409026010076 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 409026010077 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 409026010078 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 409026010079 multifunctional aminopeptidase A; Provisional; Region: PRK00913 409026010080 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 409026010081 interface (dimer of trimers) [polypeptide binding]; other site 409026010082 Substrate-binding/catalytic site; other site 409026010083 Zn-binding sites [ion binding]; other site 409026010084 Transposase; Region: DEDD_Tnp_IS110; pfam01548 409026010085 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 409026010086 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 409026010087 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 409026010088 DHH family; Region: DHH; pfam01368 409026010089 DHHA1 domain; Region: DHHA1; pfam02272 409026010090 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 409026010091 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 409026010092 dimerization domain [polypeptide binding]; other site 409026010093 dimer interface [polypeptide binding]; other site 409026010094 catalytic residues [active] 409026010095 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 409026010096 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 409026010097 Int/Topo IB signature motif; other site 409026010098 active site 409026010099 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 409026010100 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 409026010101 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 409026010102 S-adenosylmethionine binding site [chemical binding]; other site 409026010103 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 409026010104 DEAD-like helicases superfamily; Region: DEXDc; smart00487 409026010105 ATP binding site [chemical binding]; other site 409026010106 Mg++ binding site [ion binding]; other site 409026010107 motif III; other site 409026010108 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 409026010109 nucleotide binding region [chemical binding]; other site 409026010110 ATP-binding site [chemical binding]; other site 409026010111 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 409026010112 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 409026010113 Protein export membrane protein; Region: SecD_SecF; cl14618 409026010114 Radical SAM superfamily; Region: Radical_SAM; pfam04055 409026010115 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 409026010116 FeS/SAM binding site; other site 409026010117 PAS fold; Region: PAS; pfam00989 409026010118 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 409026010119 putative active site [active] 409026010120 heme pocket [chemical binding]; other site 409026010121 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026010122 Protein of unknown function, DUF481; Region: DUF481; cl01213 409026010123 hypothetical protein; Provisional; Region: PRK08185 409026010124 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 409026010125 intersubunit interface [polypeptide binding]; other site 409026010126 active site 409026010127 zinc binding site [ion binding]; other site 409026010128 Na+ binding site [ion binding]; other site 409026010129 Phosphoglycerate kinase; Region: PGK; pfam00162 409026010130 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; cl00198 409026010131 substrate binding site [chemical binding]; other site 409026010132 hinge regions; other site 409026010133 ADP binding site [chemical binding]; other site 409026010134 catalytic site [active] 409026010135 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 409026010136 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 409026010137 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 409026010138 transketolase; Reviewed; Region: PRK12753 409026010139 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 409026010140 TPP-binding site [chemical binding]; other site 409026010141 dimer interface [polypeptide binding]; other site 409026010142 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 409026010143 PYR/PP interface [polypeptide binding]; other site 409026010144 dimer interface [polypeptide binding]; other site 409026010145 TPP binding site [chemical binding]; other site 409026010146 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 409026010147 S-adenosylmethionine synthetase; Validated; Region: PRK05250 409026010148 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 409026010149 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 409026010150 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 409026010151 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 409026010152 Coenzyme A binding pocket [chemical binding]; other site 409026010153 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 409026010154 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 409026010155 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026010156 metal binding site [ion binding]; metal-binding site 409026010157 active site 409026010158 I-site; other site 409026010159 META domain; Region: META; cl01245 409026010160 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 409026010161 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 409026010162 Coenzyme A binding pocket [chemical binding]; other site 409026010163 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 409026010164 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 409026010165 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 409026010166 Amino acid permease; Region: AA_permease; cl00524 409026010167 Protein of unknown function DUF84; Region: NTPase_I-T; cl00866 409026010168 Helix-turn-helix domains; Region: HTH; cl00088 409026010169 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 409026010170 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 409026010171 Coenzyme A binding pocket [chemical binding]; other site 409026010172 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 409026010173 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 409026010174 active site 409026010175 catalytic tetrad [active] 409026010176 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 409026010177 Aminotransferase class-V; Region: Aminotran_5; pfam00266 409026010178 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 409026010179 catalytic residue [active] 409026010180 Fe-S metabolism associated domain; Region: SufE; cl00951 409026010181 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 409026010182 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 409026010183 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 409026010184 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 409026010185 active site 409026010186 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 409026010187 Predicted ATPase [General function prediction only]; Region: COG4637 409026010188 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026010189 Protein of unknown function (DUF1696); Region: DUF1696; pfam08000 409026010190 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 409026010191 Peptidase family U32; Region: Peptidase_U32; cl03113 409026010192 Collagenase; Region: DUF3656; pfam12392 409026010193 Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); Region: DUF2082; cl01381 409026010194 Cupin domain; Region: Cupin_2; cl09118 409026010195 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 409026010196 GAF domain; Region: GAF; cl00853 409026010197 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026010198 Walker A motif; other site 409026010199 ATP binding site [chemical binding]; other site 409026010200 Walker B motif; other site 409026010201 arginine finger; other site 409026010202 Helix-turn-helix domains; Region: HTH; cl00088 409026010203 NnrS protein; Region: NnrS; cl01258 409026010204 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 409026010205 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 409026010206 heme-binding site [chemical binding]; other site 409026010207 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 409026010208 FAD binding pocket [chemical binding]; other site 409026010209 FAD binding motif [chemical binding]; other site 409026010210 phosphate binding motif [ion binding]; other site 409026010211 beta-alpha-beta structure motif; other site 409026010212 NAD binding pocket [chemical binding]; other site 409026010213 Heme binding pocket [chemical binding]; other site 409026010214 Iodotyrosine dehalogenase catalyzes the removal of iodine from the 3, 5 positions of L-tyosine in thyroid, liver and kidney, using NADPH as electron donor. This enzyme is a homolog of the nitroreductase family. These enzymes are usually homodimers; Region: iodotyrosine_dehalogenase; cd02144 409026010215 putative FMN binding site [chemical binding]; other site 409026010216 putative dimer interface [polypeptide binding]; other site 409026010217 MAPEG family; Region: MAPEG; cl09190 409026010218 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 409026010219 putative hydrophobic ligand binding site [chemical binding]; other site 409026010220 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 409026010221 active site 409026010222 trimer interface [polypeptide binding]; other site 409026010223 allosteric site; other site 409026010224 active site lid [active] 409026010225 hexamer (dimer of trimers) interface [polypeptide binding]; other site 409026010226 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 409026010227 pseudouridine synthase; Region: TIGR00093 409026010228 active site 409026010229 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 409026010230 putative active site [active] 409026010231 heme pocket [chemical binding]; other site 409026010232 PAS domain S-box; Region: sensory_box; TIGR00229 409026010233 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 409026010234 putative active site [active] 409026010235 heme pocket [chemical binding]; other site 409026010236 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026010237 metal binding site [ion binding]; metal-binding site 409026010238 active site 409026010239 I-site; other site 409026010240 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 409026010241 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 409026010242 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 409026010243 Domon-like ligand-binding domains; Region: DOMON_like; cd00241 409026010244 putative ligand binding site [chemical binding]; other site 409026010245 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 409026010246 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 409026010247 ATP-binding site [chemical binding]; other site 409026010248 Gluconate-6-phosphate binding site [chemical binding]; other site 409026010249 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 409026010250 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 409026010251 putative symporter YagG; Provisional; Region: PRK09669 409026010252 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 409026010253 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026010254 Helix-turn-helix domains; Region: HTH; cl00088 409026010255 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 409026010256 putative effector binding pocket; other site 409026010257 dimerization interface [polypeptide binding]; other site 409026010258 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026010259 NAD(P) binding site [chemical binding]; other site 409026010260 active site 409026010261 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 409026010262 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 409026010263 dimer interface [polypeptide binding]; other site 409026010264 putative anticodon binding site; other site 409026010265 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 409026010266 motif 1; other site 409026010267 active site 409026010268 motif 2; other site 409026010269 motif 3; other site 409026010270 RF-1 domain; Region: RF-1; cl02875 409026010271 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 409026010272 RF-1 domain; Region: RF-1; cl02875 409026010273 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 409026010274 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 409026010275 Ion channel; Region: Ion_trans_2; cl11596 409026010276 putative transposase OrfB; Reviewed; Region: PHA02517 409026010277 Integrase core domain; Region: rve; cl01316 409026010278 Helix-turn-helix domains; Region: HTH; cl00088 409026010279 RDD family; Region: RDD; cl00746 409026010280 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 409026010281 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 409026010282 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026010283 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 409026010284 4Fe-4S binding domain; Region: Fer4; cl02805 409026010285 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 409026010286 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 409026010287 [4Fe-4S] binding site [ion binding]; other site 409026010288 molybdopterin cofactor binding site; other site 409026010289 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 409026010290 molybdopterin cofactor binding site; other site 409026010291 Chromate transporter; Region: Chromate_transp; pfam02417 409026010292 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 409026010293 Chromate transporter; Region: Chromate_transp; pfam02417 409026010294 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 409026010295 Helix-turn-helix domains; Region: HTH; cl00088 409026010296 OsmC-like protein; Region: OsmC; cl00767 409026010297 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 409026010298 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026010299 metal binding site [ion binding]; metal-binding site 409026010300 active site 409026010301 I-site; other site 409026010302 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 409026010303 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 409026010304 catalytic residue [active] 409026010305 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 409026010306 catalytic residues [active] 409026010307 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026010308 peroxiredoxin; Region: AhpC; TIGR03137 409026010309 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 409026010310 dimer interface [polypeptide binding]; other site 409026010311 decamer (pentamer of dimers) interface [polypeptide binding]; other site 409026010312 catalytic triad [active] 409026010313 peroxidatic and resolving cysteines [active] 409026010314 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 409026010315 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 409026010316 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 409026010317 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 409026010318 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026010319 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 409026010320 S-adenosylmethionine binding site [chemical binding]; other site 409026010321 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 409026010322 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 409026010323 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 and...; Region: PseudoU_synth_RluCD_like; cd02869 409026010324 active site 409026010325 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 409026010326 Helix-turn-helix domains; Region: HTH; cl00088 409026010327 Peptidase M36 family also known as fungalysin family; Region: M36; cd09596 409026010328 PA_subtilisin_1: Protease-associated domain containing subtilisin-like proteases, subgroup 1. A subgroup of PA domain-containing subtilisin-like proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined; Region: PA_subtilisin_1; cd04818 409026010329 PA/protease or protease-like domain interface [polypeptide binding]; other site 409026010330 Peptidase M36 family also known as fungalysin family; Region: M36; cd09596 409026010331 Zn binding site [ion binding]; other site 409026010332 Rhombo-CTERM domain; Region: rhombo_CTERM; TIGR03501 409026010333 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 409026010334 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 409026010335 active site 409026010336 Zn binding site [ion binding]; other site 409026010337 aspartate kinase III; Validated; Region: PRK09084 409026010338 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 409026010339 nucleotide binding site [chemical binding]; other site 409026010340 substrate binding site [chemical binding]; other site 409026010341 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 409026010342 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 409026010343 dimer interface [polypeptide binding]; other site 409026010344 Protein of unknown function (DUF3293); Region: DUF3293; pfam11697 409026010345 two-component response regulator; Provisional; Region: PRK11173 409026010346 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 409026010347 active site 409026010348 phosphorylation site [posttranslational modification] 409026010349 intermolecular recognition site; other site 409026010350 dimerization interface [polypeptide binding]; other site 409026010351 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 409026010352 DNA binding site [nucleotide binding] 409026010353 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 409026010354 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 409026010355 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 409026010356 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 409026010357 AMP binding site [chemical binding]; other site 409026010358 metal binding site [ion binding]; metal-binding site 409026010359 active site 409026010360 DoxX; Region: DoxX; cl00976 409026010361 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026010362 Helix-turn-helix domains; Region: HTH; cl00088 409026010363 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 409026010364 putative effector binding pocket; other site 409026010365 dimerization interface [polypeptide binding]; other site 409026010366 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 409026010367 heme-binding residues [chemical binding]; other site 409026010368 FAD binding domain; Region: FAD_binding_2; pfam00890 409026010369 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026010370 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 409026010371 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 409026010372 substrate binding pocket [chemical binding]; other site 409026010373 membrane-bound complex binding site; other site 409026010374 hinge residues; other site 409026010375 sensory histidine kinase AtoS; Provisional; Region: PRK11360 409026010376 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 409026010377 ATP binding site [chemical binding]; other site 409026010378 G-X-G motif; other site 409026010379 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 409026010380 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 409026010381 active site 409026010382 phosphorylation site [posttranslational modification] 409026010383 intermolecular recognition site; other site 409026010384 dimerization interface [polypeptide binding]; other site 409026010385 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026010386 Walker A motif; other site 409026010387 ATP binding site [chemical binding]; other site 409026010388 Walker B motif; other site 409026010389 arginine finger; other site 409026010390 Helix-turn-helix domains; Region: HTH; cl00088 409026010391 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 409026010392 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 409026010393 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 409026010394 Protein of unknown function (DUF3581); Region: DUF3581; pfam12119 409026010395 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 409026010396 Helix-turn-helix domains; Region: HTH; cl00088 409026010397 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 409026010398 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 409026010399 classical (c) SDRs; Region: SDR_c; cd05233 409026010400 NAD(P) binding site [chemical binding]; other site 409026010401 active site 409026010402 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 409026010403 homotrimer interaction site [polypeptide binding]; other site 409026010404 putative active site [active] 409026010405 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026010406 FMN-binding domain; Region: FMN_bind; cl01081 409026010407 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 409026010408 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 409026010409 dimerization interface [polypeptide binding]; other site 409026010410 Helix-turn-helix domains; Region: HTH; cl00088 409026010411 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 409026010412 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 409026010413 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026010414 NAD(P) binding site [chemical binding]; other site 409026010415 active site 409026010416 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 409026010417 S-adenosylmethionine binding site [chemical binding]; other site 409026010418 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 409026010419 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 409026010420 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 409026010421 N-terminal domain interface [polypeptide binding]; other site 409026010422 dimer interface [polypeptide binding]; other site 409026010423 substrate binding pocket (H-site) [chemical binding]; other site 409026010424 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 409026010425 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 409026010426 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 409026010427 Helix-turn-helix domains; Region: HTH; cl00088 409026010428 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 409026010429 putative substrate binding pocket [chemical binding]; other site 409026010430 putative dimerization interface [polypeptide binding]; other site 409026010431 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 409026010432 Transglycosylase; Region: Transgly; cl07896 409026010433 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 409026010434 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 409026010435 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 409026010436 ATP binding site [chemical binding]; other site 409026010437 putative Mg++ binding site [ion binding]; other site 409026010438 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026010439 Helicase associated domain (HA2); Region: HA2; cl04503 409026010440 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 409026010441 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 409026010442 2',5' RNA ligase family; Region: 2_5_RNA_ligase; pfam02834 409026010443 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 409026010444 DNA binding site [nucleotide binding] 409026010445 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 409026010446 active site 409026010447 phosphorylation site [posttranslational modification] 409026010448 intermolecular recognition site; other site 409026010449 dimerization interface [polypeptide binding]; other site 409026010450 aminopeptidase B; Provisional; Region: PRK05015 409026010451 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 409026010452 interface (dimer of trimers) [polypeptide binding]; other site 409026010453 Substrate-binding/catalytic site; other site 409026010454 Zn-binding sites [ion binding]; other site 409026010455 Sugar fermentation stimulation protein; Region: SfsA; cl00647 409026010456 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 409026010457 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 409026010458 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 409026010459 active site 409026010460 HIGH motif; other site 409026010461 nucleotide binding site [chemical binding]; other site 409026010462 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 409026010463 active site 409026010464 KMSKS motif; other site 409026010465 poly(A) polymerase; Region: pcnB; TIGR01942 409026010466 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 409026010467 active site 409026010468 NTP binding site [chemical binding]; other site 409026010469 metal binding triad [ion binding]; metal-binding site 409026010470 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 409026010471 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 409026010472 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 409026010473 catalytic center binding site [active] 409026010474 ATP binding site [chemical binding]; other site 409026010475 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 409026010476 oligomerization interface [polypeptide binding]; other site 409026010477 active site 409026010478 metal binding site [ion binding]; metal-binding site 409026010479 pantoate--beta-alanine ligase; Reviewed; Region: panC; PRK00380 409026010480 Pantoate-beta-alanine ligase; Region: PanC; cd00560 409026010481 active site 409026010482 ATP-binding site [chemical binding]; other site 409026010483 pantoate-binding site; other site 409026010484 HXXH motif; other site 409026010485 protein structure with unknown function; Region: DUF4144; pfam13642 409026010486 ABC-2 type transporter; Region: ABC2_membrane; cl11417 409026010487 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 409026010488 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026010489 Walker A/P-loop; other site 409026010490 ATP binding site [chemical binding]; other site 409026010491 Q-loop/lid; other site 409026010492 ABC transporter signature motif; other site 409026010493 Walker B; other site 409026010494 D-loop; other site 409026010495 H-loop/switch region; other site 409026010496 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 409026010497 aromatic acid decarboxylase; Validated; Region: PRK05920 409026010498 Flavoprotein; Region: Flavoprotein; cl08021 409026010499 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 409026010500 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 409026010501 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 409026010502 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 409026010503 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 409026010504 Permease family; Region: Xan_ur_permease; cl00967 409026010505 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 409026010506 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 409026010507 Ligand Binding Site [chemical binding]; other site 409026010508 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 409026010509 Ligand Binding Site [chemical binding]; other site 409026010510 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 409026010511 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 409026010512 putative FMN binding site [chemical binding]; other site 409026010513 Protein of unknown function (DUF541); Region: SIMPL; cl01077 409026010514 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 409026010515 eyelet of channel; other site 409026010516 trimer interface [polypeptide binding]; other site 409026010517 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 409026010518 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026010519 metal binding site [ion binding]; metal-binding site 409026010520 active site 409026010521 I-site; other site 409026010522 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 409026010523 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 409026010524 homodimer interface [polypeptide binding]; other site 409026010525 substrate-cofactor binding pocket; other site 409026010526 pyridoxal 5'-phosphate binding site [chemical binding]; other site 409026010527 catalytic residue [active] 409026010528 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 409026010529 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 409026010530 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 409026010531 TPR motif; other site 409026010532 binding surface 409026010533 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026010534 metal binding site [ion binding]; metal-binding site 409026010535 active site 409026010536 I-site; other site 409026010537 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 409026010538 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 409026010539 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 409026010540 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 409026010541 Protein of unknown function (DUF998); Region: DUF998; cl01334 409026010542 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 409026010543 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; cl09940 409026010544 PseudoU_synth_RluF_like: Pseudouridine synthase, Escherichia coli RluF like. This group is comprised of bacterial proteins similar to Escherichia coli RluF. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluF; cd02554 409026010545 probable active site [active] 409026010546 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 409026010547 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 409026010548 Peptidase S46; Region: Peptidase_S46; pfam10459 409026010549 Amino acid permease; Region: AA_permease; cl00524 409026010550 Predicted membrane protein [Function unknown]; Region: COG2119 409026010551 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 409026010552 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 409026010553 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 409026010554 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 409026010555 tetramer interface [polypeptide binding]; other site 409026010556 heme binding pocket [chemical binding]; other site 409026010557 NADPH binding site [chemical binding]; other site 409026010558 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 409026010559 CoenzymeA binding site [chemical binding]; other site 409026010560 subunit interaction site [polypeptide binding]; other site 409026010561 PHB binding site; other site 409026010562 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 409026010563 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 409026010564 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 409026010565 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 409026010566 Nucleoside recognition; Region: Gate; cl00486 409026010567 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 409026010568 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 409026010569 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 409026010570 active site 409026010571 metal binding site [ion binding]; metal-binding site 409026010572 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 409026010573 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 409026010574 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 409026010575 Endonuclease I; Region: Endonuclease_1; cl01003 409026010576 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 409026010577 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 409026010578 generic binding surface I; other site 409026010579 generic binding surface II; other site 409026010580 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 409026010581 putative catalytic site [active] 409026010582 putative metal binding site [ion binding]; other site 409026010583 putative phosphate binding site [ion binding]; other site 409026010584 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 409026010585 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 409026010586 DNA binding residues [nucleotide binding] 409026010587 dimerization interface [polypeptide binding]; other site 409026010588 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 409026010589 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 409026010590 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026010591 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 409026010592 L-serine binding site [chemical binding]; other site 409026010593 ACT domain interface; other site 409026010594 putative global regulator; Reviewed; Region: PRK09559 409026010595 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 409026010596 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 409026010597 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 409026010598 active site 409026010599 phosphorylation site [posttranslational modification] 409026010600 intermolecular recognition site; other site 409026010601 dimerization interface [polypeptide binding]; other site 409026010602 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 409026010603 Zn2+ binding site [ion binding]; other site 409026010604 Mg2+ binding site [ion binding]; other site 409026010605 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 409026010606 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 409026010607 PAS domain S-box; Region: sensory_box; TIGR00229 409026010608 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 409026010609 putative active site [active] 409026010610 heme pocket [chemical binding]; other site 409026010611 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 409026010612 PAS fold; Region: PAS_3; pfam08447 409026010613 putative active site [active] 409026010614 heme pocket [chemical binding]; other site 409026010615 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 409026010616 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 409026010617 putative active site [active] 409026010618 heme pocket [chemical binding]; other site 409026010619 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 409026010620 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 409026010621 putative active site [active] 409026010622 heme pocket [chemical binding]; other site 409026010623 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 409026010624 dimer interface [polypeptide binding]; other site 409026010625 phosphorylation site [posttranslational modification] 409026010626 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 409026010627 ATP binding site [chemical binding]; other site 409026010628 Mg2+ binding site [ion binding]; other site 409026010629 G-X-G motif; other site 409026010630 Response regulator receiver domain; Region: Response_reg; pfam00072 409026010631 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 409026010632 active site 409026010633 phosphorylation site [posttranslational modification] 409026010634 intermolecular recognition site; other site 409026010635 dimerization interface [polypeptide binding]; other site 409026010636 Response regulator receiver domain; Region: Response_reg; pfam00072 409026010637 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 409026010638 active site 409026010639 phosphorylation site [posttranslational modification] 409026010640 intermolecular recognition site; other site 409026010641 dimerization interface [polypeptide binding]; other site 409026010642 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 409026010643 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 409026010644 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 409026010645 Walker A/P-loop; other site 409026010646 ATP binding site [chemical binding]; other site 409026010647 Q-loop/lid; other site 409026010648 ABC transporter signature motif; other site 409026010649 Walker B; other site 409026010650 D-loop; other site 409026010651 H-loop/switch region; other site 409026010652 FtsX-like permease family; Region: FtsX; pfam02687 409026010653 FtsX-like permease family; Region: FtsX; pfam02687 409026010654 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 409026010655 NapD protein; Region: NapD; cl01163 409026010656 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 409026010657 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 409026010658 [4Fe-4S] binding site [ion binding]; other site 409026010659 molybdopterin cofactor binding site; other site 409026010660 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 409026010661 molybdopterin cofactor binding site; other site 409026010662 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 409026010663 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 409026010664 Ligand Binding Site [chemical binding]; other site 409026010665 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026010666 Helix-turn-helix domains; Region: HTH; cl00088 409026010667 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 409026010668 dimerization interface [polypeptide binding]; other site 409026010669 LysE type translocator; Region: LysE; cl00565 409026010670 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026010671 Helix-turn-helix domains; Region: HTH; cl00088 409026010672 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 409026010673 putative dimerization interface [polypeptide binding]; other site 409026010674 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 409026010675 putative active site [active] 409026010676 PAS fold; Region: PAS_3; pfam08447 409026010677 heme pocket [chemical binding]; other site 409026010678 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026010679 metal binding site [ion binding]; metal-binding site 409026010680 active site 409026010681 I-site; other site 409026010682 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl14780 409026010683 Acetyl-CoA carboxylase beta subunit [Lipid metabolism]; Region: AccD; COG0777 409026010684 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 409026010685 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 409026010686 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 409026010687 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 409026010688 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 409026010689 carboxyltransferase (CT) interaction site; other site 409026010690 biotinylation site [posttranslational modification]; other site 409026010691 LysR family transcriptional regulator; Provisional; Region: PRK14997 409026010692 Helix-turn-helix domains; Region: HTH; cl00088 409026010693 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 409026010694 putative effector binding pocket; other site 409026010695 dimerization interface [polypeptide binding]; other site 409026010696 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 409026010697 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cl00237 409026010698 putative substrate binding pocket [chemical binding]; other site 409026010699 AC domain interface; other site 409026010700 catalytic triad [active] 409026010701 AB domain interface; other site 409026010702 SprT homologues; Region: SprT; cl01182 409026010703 SprT-like family; Region: SprT-like; pfam10263 409026010704 DNA-specific endonuclease I; Provisional; Region: PRK15137 409026010705 Endonuclease I; Region: Endonuclease_1; cl01003 409026010706 RNA methyltransferase, RsmE family; Region: TIGR00046 409026010707 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 409026010708 glutathione synthetase; Provisional; Region: PRK05246 409026010709 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 409026010710 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 409026010711 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 409026010712 dimer interface [polypeptide binding]; other site 409026010713 Alkaline phosphatase homologues; Region: alkPPc; smart00098 409026010714 active site 409026010715 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 409026010716 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 409026010717 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 409026010718 S-adenosylmethionine binding site [chemical binding]; other site 409026010719 Protein of unknown function (DUF342); Region: DUF342; pfam03961 409026010720 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_2; cd06160 409026010721 active site 409026010722 putative substrate binding region [chemical binding]; other site 409026010723 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 409026010724 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 409026010725 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 409026010726 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 409026010727 DNA binding site [nucleotide binding] 409026010728 Int/Topo IB signature motif; other site 409026010729 active site 409026010730 catalytic residues [active] 409026010731 Domain of unknown function (DUF955); Region: DUF955; cl01076 409026010732 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 409026010733 non-specific DNA binding site [nucleotide binding]; other site 409026010734 salt bridge; other site 409026010735 sequence-specific DNA binding site [nucleotide binding]; other site 409026010736 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 409026010737 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 409026010738 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 409026010739 active site flap/lid [active] 409026010740 nucleophilic elbow; other site 409026010741 catalytic triad [active] 409026010742 Integrase core domain; Region: rve; cl01316 409026010743 Helix-turn-helix domains; Region: HTH; cl00088 409026010744 Helix-turn-helix domains; Region: HTH; cl00088 409026010745 Integrase core domain; Region: rve; cl01316 409026010746 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 409026010747 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 409026010748 putative metal binding site [ion binding]; other site 409026010749 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 409026010750 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 409026010751 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 409026010752 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026010753 Walker A/P-loop; other site 409026010754 ATP binding site [chemical binding]; other site 409026010755 dCTP pyrophosphatase; Provisional; Region: 56; PHA02602 409026010756 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026010757 Q-loop/lid; other site 409026010758 ABC transporter signature motif; other site 409026010759 Walker B; other site 409026010760 D-loop; other site 409026010761 H-loop/switch region; other site 409026010762 Protein of unknown function DUF262; Region: DUF262; cl14890 409026010763 Protein of unknown function DUF262; Region: DUF262; cl14890 409026010764 Protein of unknown function DUF262; Region: DUF262; cl14890 409026010765 Integrase core domain; Region: rve; cl01316 409026010766 Helix-turn-helix domains; Region: HTH; cl00088 409026010767 Protein of unknown function (DUF2787); Region: DUF2787; pfam10980 409026010768 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 409026010769 cofactor binding site; other site 409026010770 DNA binding site [nucleotide binding] 409026010771 substrate interaction site [chemical binding]; other site 409026010772 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 409026010773 AIPR protein; Region: AIPR; pfam10592 409026010774 Domain of unknown function (DUF4420); Region: DUF4420; pfam14390 409026010775 Z1 domain; Region: Z1; pfam10593 409026010776 Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]; Region: HtpG; COG0326 409026010777 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 409026010778 Protein of unknown function (DUF3149); Region: DUF3149; pfam11346 409026010779 Superinfection exclusion protein B; Region: SieB; pfam14163 409026010780 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 409026010781 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 409026010782 putative ATP binding site [chemical binding]; other site 409026010783 putative substrate interface [chemical binding]; other site 409026010784 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 409026010785 eyelet of channel; other site 409026010786 trimer interface [polypeptide binding]; other site 409026010787 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 409026010788 eyelet of channel; other site 409026010789 trimer interface [polypeptide binding]; other site 409026010790 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 409026010791 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 409026010792 Catalytic domain of Protein Kinases; Region: PKc; cd00180 409026010793 active site 409026010794 ATP binding site [chemical binding]; other site 409026010795 substrate binding site [chemical binding]; other site 409026010796 activation loop (A-loop); other site 409026010797 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 409026010798 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 409026010799 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 409026010800 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 409026010801 LysE type translocator; Region: LysE; cl00565 409026010802 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 409026010803 DsbD alpha interface [polypeptide binding]; other site 409026010804 catalytic residues [active] 409026010805 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 409026010806 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 409026010807 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026010808 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 409026010809 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 409026010810 domain; Region: Glyco_hydro_2; pfam00703 409026010811 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 409026010812 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 409026010813 putative transporter; Provisional; Region: PRK10484 409026010814 Sodium:solute symporter family; Region: SSF; cl00456 409026010815 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 409026010816 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 409026010817 dimer interface [polypeptide binding]; other site 409026010818 active site 409026010819 galactokinase; Provisional; Region: PRK05101 409026010820 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 409026010821 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 409026010822 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 409026010823 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 409026010824 active site 409026010825 catalytic residues [active] 409026010826 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 409026010827 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 409026010828 substrate binding pocket [chemical binding]; other site 409026010829 membrane-bound complex binding site; other site 409026010830 hinge residues; other site 409026010831 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 409026010832 dimer interface [polypeptide binding]; other site 409026010833 ssDNA binding site [nucleotide binding]; other site 409026010834 tetramer (dimer of dimers) interface [polypeptide binding]; other site 409026010835 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026010836 Choloylglycine hydrolase (CGH)_like. This family of choloylglycine hydrolase-like proteins includes conjugated bile acid hydrolase (CBAH), penicillin V acylase (PVA), acid ceramidase (AC), and N-acylethanolamine-hydrolyzing acid amidase (NAAA) which...; Region: Ntn_CGH_like; cd01935 409026010837 active site 409026010838 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026010839 Helix-turn-helix domains; Region: HTH; cl00088 409026010840 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 409026010841 dimerization interface [polypeptide binding]; other site 409026010842 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 409026010843 active site 409026010844 vitamin B12/cobalamin outer membrane transporter; Provisional; Region: btuB; PRK10641 409026010845 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 409026010846 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 409026010847 Major Facilitator Superfamily; Region: MFS_1; pfam07690 409026010848 putative substrate translocation pore; other site 409026010849 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 409026010850 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 409026010851 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 409026010852 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 409026010853 M28 Zn-Peptidases; Region: M28_like_2; cd05662 409026010854 metal binding site [ion binding]; metal-binding site 409026010855 helicase 45; Provisional; Region: PTZ00424 409026010856 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 409026010857 ATP binding site [chemical binding]; other site 409026010858 Mg++ binding site [ion binding]; other site 409026010859 motif III; other site 409026010860 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 409026010861 nucleotide binding region [chemical binding]; other site 409026010862 ATP-binding site [chemical binding]; other site 409026010863 DbpA RNA binding domain; Region: DbpA; pfam03880 409026010864 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 409026010865 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 409026010866 Cytochrome c [Energy production and conversion]; Region: COG3258 409026010867 Cytochrome c; Region: Cytochrom_C; cl11414 409026010868 Cytochrome c; Region: Cytochrom_C; cl11414 409026010869 Cytochrome c; Region: Cytochrom_C; cl11414 409026010870 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 409026010871 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 409026010872 nucleotide binding site [chemical binding]; other site 409026010873 substrate binding site [chemical binding]; other site 409026010874 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 409026010875 O-succinylhomoserine (thiol)-lyase; Region: O_succ_thio_ly; TIGR02080 409026010876 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 409026010877 homodimer interface [polypeptide binding]; other site 409026010878 substrate-cofactor binding pocket; other site 409026010879 pyridoxal 5'-phosphate binding site [chemical binding]; other site 409026010880 catalytic residue [active] 409026010881 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox' sequence. MetJ...; Region: Met_repressor_MetJ; cd00490 409026010882 dimerization interface [polypeptide binding]; other site 409026010883 DNA binding site [nucleotide binding] 409026010884 corepressor binding sites; other site 409026010885 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 409026010886 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 409026010887 PAS fold; Region: PAS_4; pfam08448 409026010888 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 409026010889 putative active site [active] 409026010890 heme pocket [chemical binding]; other site 409026010891 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 409026010892 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 409026010893 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 409026010894 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026010895 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 409026010896 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 409026010897 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 409026010898 Metal-binding active site; metal-binding site 409026010899 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 409026010900 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 409026010901 Major Facilitator Superfamily; Region: MFS_1; pfam07690 409026010902 putative substrate translocation pore; other site 409026010903 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 409026010904 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026010905 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 409026010906 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 409026010907 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 409026010908 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 409026010909 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026010910 Helix-turn-helix domains; Region: HTH; cl00088 409026010911 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 409026010912 putative effector binding pocket; other site 409026010913 dimerization interface [polypeptide binding]; other site 409026010914 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 409026010915 classical (c) SDRs; Region: SDR_c; cd05233 409026010916 NAD(P) binding site [chemical binding]; other site 409026010917 active site 409026010918 Cytochrome c; Region: Cytochrom_C; cl11414 409026010919 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 409026010920 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 409026010921 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 409026010922 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 409026010923 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026010924 Walker A/P-loop; other site 409026010925 ATP binding site [chemical binding]; other site 409026010926 Q-loop/lid; other site 409026010927 ABC transporter signature motif; other site 409026010928 Walker B; other site 409026010929 D-loop; other site 409026010930 H-loop/switch region; other site 409026010931 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 409026010932 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026010933 Walker A/P-loop; other site 409026010934 ATP binding site [chemical binding]; other site 409026010935 Q-loop/lid; other site 409026010936 ABC transporter signature motif; other site 409026010937 Walker B; other site 409026010938 D-loop; other site 409026010939 H-loop/switch region; other site 409026010940 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 409026010941 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 409026010942 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026010943 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026010944 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026010945 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026010946 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026010947 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026010948 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026010949 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026010950 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026010951 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026010952 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026010953 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026010954 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026010955 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026010956 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026010957 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026010958 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026010959 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026010960 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026010961 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026010962 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026010963 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 409026010964 calcium mediated ligand binding site; other site 409026010965 intermolecular salt bridges; other site 409026010966 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026010967 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026010968 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026010969 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026010970 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026010971 VCBS repeat; Region: VCBS_repeat; TIGR01965 409026010972 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 409026010973 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 409026010974 FMN binding site [chemical binding]; other site 409026010975 active site 409026010976 substrate binding site [chemical binding]; other site 409026010977 catalytic residue [active] 409026010978 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_9; cd07245 409026010979 dimer interface [polypeptide binding]; other site 409026010980 putative metal binding site [ion binding]; other site 409026010981 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026010982 Helix-turn-helix domains; Region: HTH; cl00088 409026010983 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 409026010984 putative effector binding pocket; other site 409026010985 dimerization interface [polypeptide binding]; other site 409026010986 Cupin domain; Region: Cupin_2; cl09118 409026010987 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 409026010988 N-terminal plug; other site 409026010989 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 409026010990 ligand-binding site [chemical binding]; other site 409026010991 GAF domain; Region: GAF; cl00853 409026010992 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026010993 metal binding site [ion binding]; metal-binding site 409026010994 active site 409026010995 I-site; other site 409026010996 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 409026010997 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 409026010998 active site 409026010999 phosphorylation site [posttranslational modification] 409026011000 intermolecular recognition site; other site 409026011001 dimerization interface [polypeptide binding]; other site 409026011002 Helix-turn-helix domains; Region: HTH; cl00088 409026011003 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 409026011004 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 409026011005 ATP binding site [chemical binding]; other site 409026011006 Mg2+ binding site [ion binding]; other site 409026011007 G-X-G motif; other site 409026011008 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 409026011009 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 409026011010 NADP binding site [chemical binding]; other site 409026011011 active site 409026011012 putative substrate binding site [chemical binding]; other site 409026011013 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 409026011014 metal binding site [ion binding]; metal-binding site 409026011015 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 409026011016 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 409026011017 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 409026011018 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 409026011019 active site 409026011020 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 409026011021 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 409026011022 Domain of unknown function (DUF386); Region: DUF386; cl01047 409026011023 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 409026011024 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 409026011025 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 409026011026 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 409026011027 catalytic residue [active] 409026011028 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 409026011029 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 409026011030 active site residue [active] 409026011031 Penicillin-insensitive murein endopeptidase; Region: Peptidase_M74; cl01538 409026011032 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 409026011033 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 409026011034 putative active site [active] 409026011035 heme pocket [chemical binding]; other site 409026011036 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 409026011037 dimer interface [polypeptide binding]; other site 409026011038 phosphorylation site [posttranslational modification] 409026011039 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 409026011040 ATP binding site [chemical binding]; other site 409026011041 Mg2+ binding site [ion binding]; other site 409026011042 G-X-G motif; other site 409026011043 Response regulator receiver domain; Region: Response_reg; pfam00072 409026011044 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 409026011045 active site 409026011046 phosphorylation site [posttranslational modification] 409026011047 intermolecular recognition site; other site 409026011048 dimerization interface [polypeptide binding]; other site 409026011049 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 409026011050 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 409026011051 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 409026011052 Putative esterase; Region: Esterase; pfam00756 409026011053 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 409026011054 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 409026011055 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 409026011056 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 409026011057 Protein of unknown function (DUF3012); Region: DUF3012; pfam11216 409026011058 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 409026011059 RF-1 domain; Region: RF-1; cl02875 409026011060 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 409026011061 active site 409026011062 trimer interface [polypeptide binding]; other site 409026011063 dimer interface [polypeptide binding]; other site 409026011064 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 409026011065 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 409026011066 carboxyltransferase (CT) interaction site; other site 409026011067 biotinylation site [posttranslational modification]; other site 409026011068 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026011069 NAD(P) binding site [chemical binding]; other site 409026011070 active site 409026011071 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 409026011072 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 409026011073 catalytic residues [active] 409026011074 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 409026011075 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 409026011076 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026011077 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026011078 Cupin domain; Region: Cupin_2; cl09118 409026011079 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 409026011080 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 409026011081 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 409026011082 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 409026011083 homodimer interaction site [polypeptide binding]; other site 409026011084 cofactor binding site; other site 409026011085 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 409026011086 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 409026011087 Catalytic site [active] 409026011088 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 409026011089 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 409026011090 catalytic residues [active] 409026011091 hypothetical protein; Provisional; Region: PRK10557 409026011092 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 409026011093 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 409026011094 Type II transport protein GspH; Region: GspH; pfam12019 409026011095 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 409026011096 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 409026011097 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 409026011098 FMN reductase; Validated; Region: fre; PRK08051 409026011099 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 409026011100 FAD binding pocket [chemical binding]; other site 409026011101 FAD binding motif [chemical binding]; other site 409026011102 phosphate binding motif [ion binding]; other site 409026011103 beta-alpha-beta structure motif; other site 409026011104 NAD binding pocket [chemical binding]; other site 409026011105 Helix-turn-helix domains; Region: HTH; cl00088 409026011106 DNA binding site [nucleotide binding] 409026011107 ABC-2 type transporter; Region: ABC2_membrane; cl11417 409026011108 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 409026011109 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 409026011110 Walker A/P-loop; other site 409026011111 ATP binding site [chemical binding]; other site 409026011112 Q-loop/lid; other site 409026011113 ABC transporter signature motif; other site 409026011114 Walker B; other site 409026011115 D-loop; other site 409026011116 H-loop/switch region; other site 409026011117 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 409026011118 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 409026011119 NosL; Region: NosL; cl01769 409026011120 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 409026011121 Polysulphide reductase, NrfD; Region: NrfD; cl01295 409026011122 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 409026011123 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 409026011124 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 409026011125 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 409026011126 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 409026011127 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 409026011128 active site residue [active] 409026011129 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 409026011130 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 409026011131 Cytochrome C biogenesis protein; Region: CcmH; cl01179 409026011132 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 409026011133 catalytic residues [active] 409026011134 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 409026011135 DNA binding site [nucleotide binding] 409026011136 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 409026011137 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 409026011138 binding surface 409026011139 TPR motif; other site 409026011140 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 409026011141 binding surface 409026011142 TPR motif; other site 409026011143 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 409026011144 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 409026011145 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 409026011146 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 409026011147 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 409026011148 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 409026011149 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 409026011150 argininosuccinate lyase; Provisional; Region: PRK02186 409026011151 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 409026011152 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 409026011153 putative substrate translocation pore; other site 409026011154 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 409026011155 hypothetical protein; Provisional; Region: PRK09897 409026011156 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 409026011157 Protein export membrane protein; Region: SecD_SecF; cl14618 409026011158 Protein export membrane protein; Region: SecD_SecF; cl14618 409026011159 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 409026011160 Catalytic site [active] 409026011161 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 409026011162 Catalytic site [active] 409026011163 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 409026011164 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 409026011165 active site 409026011166 DNA binding site [nucleotide binding] 409026011167 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 409026011168 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 409026011169 UbiA prenyltransferase family; Region: UbiA; cl00337 409026011170 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 409026011171 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026011172 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 409026011173 homotrimer interaction site [polypeptide binding]; other site 409026011174 putative active site [active] 409026011175 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 409026011176 PAS domain S-box; Region: sensory_box; TIGR00229 409026011177 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 409026011178 putative active site [active] 409026011179 heme pocket [chemical binding]; other site 409026011180 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026011181 metal binding site [ion binding]; metal-binding site 409026011182 active site 409026011183 I-site; other site 409026011184 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 409026011185 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_21; cd04680 409026011186 nudix motif; other site 409026011187 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 409026011188 HflK protein; Region: hflK; TIGR01933 409026011189 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 409026011190 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 409026011191 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 409026011192 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 409026011193 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 409026011194 Protein of unknown function (DUF465); Region: DUF465; cl01070 409026011195 Mechanosensitive ion channel; Region: MS_channel; pfam00924 409026011196 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 409026011197 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 409026011198 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 409026011199 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 409026011200 putative substrate translocation pore; other site 409026011201 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 409026011202 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 409026011203 LysR family transcriptional regulator; Provisional; Region: PRK14997 409026011204 Helix-turn-helix domains; Region: HTH; cl00088 409026011205 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 409026011206 putative effector binding pocket; other site 409026011207 dimerization interface [polypeptide binding]; other site 409026011208 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026011209 Helix-turn-helix domains; Region: HTH; cl00088 409026011210 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 409026011211 dimerization interface [polypeptide binding]; other site 409026011212 Domain of unknown function DUF28; Region: DUF28; cl00361 409026011213 Protein of unknown function, DUF393; Region: DUF393; cl01136 409026011214 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 409026011215 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 409026011216 catalytic residues [active] 409026011217 hinge region; other site 409026011218 alpha helical domain; other site 409026011219 Predicted permease; Region: DUF318; cl00487 409026011220 Predicted permease; Region: DUF318; cl00487 409026011221 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 409026011222 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 409026011223 DNA binding residues [nucleotide binding] 409026011224 dimer interface [polypeptide binding]; other site 409026011225 metal binding site [ion binding]; metal-binding site 409026011226 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 409026011227 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 409026011228 purine monophosphate binding site [chemical binding]; other site 409026011229 dimer interface [polypeptide binding]; other site 409026011230 putative catalytic residues [active] 409026011231 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 409026011232 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 409026011233 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 409026011234 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 409026011235 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 409026011236 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026011237 short chain dehydrogenase; Provisional; Region: PRK06181 409026011238 NAD(P) binding site [chemical binding]; other site 409026011239 active site 409026011240 Spondin_N; Region: Spond_N; pfam06468 409026011241 Spondin_N; Region: Spond_N; pfam06468 409026011242 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 409026011243 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 409026011244 active site 409026011245 phosphorylation site [posttranslational modification] 409026011246 intermolecular recognition site; other site 409026011247 dimerization interface [polypeptide binding]; other site 409026011248 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 409026011249 DNA binding site [nucleotide binding] 409026011250 sensor protein BasS/PmrB; Provisional; Region: PRK10755 409026011251 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 409026011252 dimer interface [polypeptide binding]; other site 409026011253 phosphorylation site [posttranslational modification] 409026011254 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 409026011255 ATP binding site [chemical binding]; other site 409026011256 Mg2+ binding site [ion binding]; other site 409026011257 G-X-G motif; other site 409026011258 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 409026011259 substrate binding site [chemical binding]; other site 409026011260 active site 409026011261 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; cl11478 409026011262 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 409026011263 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 409026011264 substrate binding site [chemical binding]; other site 409026011265 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 409026011266 substrate binding site [chemical binding]; other site 409026011267 ligand binding site [chemical binding]; other site 409026011268 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 409026011269 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 409026011270 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 409026011271 motif II; other site 409026011272 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 409026011273 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 409026011274 putative active site [active] 409026011275 putative NTP binding site [chemical binding]; other site 409026011276 putative nucleic acid binding site [nucleotide binding]; other site 409026011277 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 409026011278 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 409026011279 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 409026011280 active site 409026011281 Zn binding site [ion binding]; other site 409026011282 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 409026011283 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 409026011284 active site 409026011285 nucleophile elbow; other site 409026011286 Surface antigen; Region: Bac_surface_Ag; cl03097 409026011287 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 409026011288 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 409026011289 PAS domain S-box; Region: sensory_box; TIGR00229 409026011290 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 409026011291 putative active site [active] 409026011292 heme pocket [chemical binding]; other site 409026011293 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026011294 metal binding site [ion binding]; metal-binding site 409026011295 active site 409026011296 I-site; other site 409026011297 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 409026011298 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 409026011299 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026011300 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026011301 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 409026011302 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 409026011303 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 409026011304 E3 interaction surface; other site 409026011305 lipoyl attachment site [posttranslational modification]; other site 409026011306 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 409026011307 E3 interaction surface; other site 409026011308 lipoyl attachment site [posttranslational modification]; other site 409026011309 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 409026011310 E3 interaction surface; other site 409026011311 lipoyl attachment site [posttranslational modification]; other site 409026011312 e3 binding domain; Region: E3_binding; pfam02817 409026011313 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 409026011314 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 409026011315 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 409026011316 dimer interface [polypeptide binding]; other site 409026011317 TPP-binding site [chemical binding]; other site 409026011318 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 409026011319 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 409026011320 DNA-binding site [nucleotide binding]; DNA binding site 409026011321 FCD domain; Region: FCD; cl11656 409026011322 CobD/Cbib protein; Region: CobD_Cbib; cl00561 409026011323 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 409026011324 amidase catalytic site [active] 409026011325 Zn binding residues [ion binding]; other site 409026011326 substrate binding site [chemical binding]; other site 409026011327 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 409026011328 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 409026011329 dimerization interface [polypeptide binding]; other site 409026011330 active site 409026011331 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 409026011332 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 409026011333 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 409026011334 Walker A motif; other site 409026011335 ATP binding site [chemical binding]; other site 409026011336 Walker B motif; other site 409026011337 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 409026011338 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 409026011339 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 409026011340 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 409026011341 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 409026011342 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 409026011343 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 409026011344 CoA-binding site [chemical binding]; other site 409026011345 ATP-binding [chemical binding]; other site 409026011346 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 409026011347 Domain of unknown function (DUF329); Region: DUF329; cl01144 409026011348 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 409026011349 active site 409026011350 8-oxo-dGMP binding site [chemical binding]; other site 409026011351 nudix motif; other site 409026011352 metal binding site [ion binding]; metal-binding site 409026011353 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 409026011354 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 409026011355 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 409026011356 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 409026011357 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 409026011358 Flagellar protein YcgR; Region: YcgR_2; pfam12945 409026011359 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1, 4-benzoquinol methylase [Coenzyme metabolism]; Region: UbiG; COG2227 409026011360 cellulose synthase A [UDP-forming], catalytic subunit; Region: PLN02915 409026011361 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 409026011362 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 409026011363 PAS domain S-box; Region: sensory_box; TIGR00229 409026011364 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026011365 metal binding site [ion binding]; metal-binding site 409026011366 active site 409026011367 I-site; other site 409026011368 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 409026011369 DTW domain; Region: DTW; cl01221 409026011370 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 409026011371 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 409026011372 putative substrate translocation pore; other site 409026011373 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 409026011374 Helix-turn-helix domains; Region: HTH; cl00088 409026011375 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 409026011376 substrate binding pocket [chemical binding]; other site 409026011377 dimerization interface [polypeptide binding]; other site 409026011378 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 409026011379 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 409026011380 Sel1 repeat; Region: Sel1; cl02723 409026011381 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 409026011382 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 409026011383 putative metal binding site [ion binding]; other site 409026011384 Amino acid permease; Region: AA_permease; cl00524 409026011385 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 409026011386 Helix-turn-helix domains; Region: HTH; cl00088 409026011387 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 409026011388 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 409026011389 dimer interface [polypeptide binding]; other site 409026011390 tetramer interface [polypeptide binding]; other site 409026011391 PYR/PP interface [polypeptide binding]; other site 409026011392 TPP binding site [chemical binding]; other site 409026011393 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 409026011394 TPP-binding site; other site 409026011395 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 409026011396 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 409026011397 nucleophilic elbow; other site 409026011398 catalytic triad; other site 409026011399 O-succinylbenzoate synthase; Provisional; Region: PRK05105 409026011400 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 409026011401 active site 409026011402 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 409026011403 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 409026011404 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 409026011405 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 409026011406 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 409026011407 DNA binding residues [nucleotide binding] 409026011408 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 409026011409 FtsX-like permease family; Region: FtsX; pfam02687 409026011410 cell division protein FtsE; Provisional; Region: PRK10908 409026011411 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026011412 Walker A/P-loop; other site 409026011413 ATP binding site [chemical binding]; other site 409026011414 Q-loop/lid; other site 409026011415 ABC transporter signature motif; other site 409026011416 Walker B; other site 409026011417 D-loop; other site 409026011418 H-loop/switch region; other site 409026011419 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 409026011420 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 409026011421 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 409026011422 P loop; other site 409026011423 GTP binding site [chemical binding]; other site 409026011424 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 409026011425 S-adenosylmethionine binding site [chemical binding]; other site 409026011426 Protein of unknown function (DUF1145); Region: DUF1145; cl11481 409026011427 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 409026011428 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl09485 409026011429 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 409026011430 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]; Region: RPB9; COG1594 409026011431 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 409026011432 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 409026011433 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 409026011434 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 409026011435 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 409026011436 Caleosin related protein; Region: Caleosin; pfam05042 409026011437 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026011438 metal binding site [ion binding]; metal-binding site 409026011439 active site 409026011440 I-site; other site 409026011441 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 409026011442 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 409026011443 Helix-turn-helix domain; Region: HTH_18; pfam12833 409026011444 Amino acid permease; Region: AA_permease; cl00524 409026011445 Glycerol-3-phosphate O-acyltransferase [Lipid metabolism]; Region: PlsB; COG2937 409026011446 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 409026011447 putative acyl-acceptor binding pocket; other site 409026011448 Helix-turn-helix domains; Region: HTH; cl00088 409026011449 LexA repressor; Validated; Region: PRK00215 409026011450 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 409026011451 Catalytic site [active] 409026011452 Cell division inhibitor SulA; Region: SulA; cl01880 409026011453 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 409026011454 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 409026011455 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 409026011456 Cytochrome c; Region: Cytochrom_C; cl11414 409026011457 Cytochrome c; Region: Cytochrom_C; cl11414 409026011458 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 409026011459 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 409026011460 Subunit I/III interface [polypeptide binding]; other site 409026011461 D-pathway; other site 409026011462 Subunit I/VIIc interface [polypeptide binding]; other site 409026011463 Subunit I/IV interface [polypeptide binding]; other site 409026011464 Subunit I/II interface [polypeptide binding]; other site 409026011465 Low-spin heme (heme a) binding site [chemical binding]; other site 409026011466 Subunit I/VIIa interface [polypeptide binding]; other site 409026011467 Subunit I/VIa interface [polypeptide binding]; other site 409026011468 Dimer interface; other site 409026011469 Putative water exit pathway; other site 409026011470 Binuclear center (heme a3/CuB) [ion binding]; other site 409026011471 K-pathway; other site 409026011472 Subunit I/Vb interface [polypeptide binding]; other site 409026011473 Putative proton exit pathway; other site 409026011474 Subunit I/VIb interface; other site 409026011475 Subunit I/VIc interface [polypeptide binding]; other site 409026011476 Electron transfer pathway; other site 409026011477 Subunit I/VIIIb interface [polypeptide binding]; other site 409026011478 Subunit I/VIIb interface [polypeptide binding]; other site 409026011479 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 409026011480 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 409026011481 Subunit III/VIIa interface [polypeptide binding]; other site 409026011482 Phospholipid binding site [chemical binding]; other site 409026011483 Subunit I/III interface [polypeptide binding]; other site 409026011484 Subunit III/VIb interface [polypeptide binding]; other site 409026011485 Subunit III/VIa interface; other site 409026011486 Subunit III/Vb interface [polypeptide binding]; other site 409026011487 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 409026011488 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 409026011489 cytochrome c oxidase assembly protein; Provisional; Region: PTZ00127 409026011490 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 409026011491 cytochrome c oxidase assembly protein; Provisional; Region: PTZ00127 409026011492 UbiA prenyltransferase family; Region: UbiA; cl00337 409026011493 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 409026011494 Cu(I) binding site [ion binding]; other site 409026011495 Putative catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases which consist of a 5-stranded beta/alpha barrel; Region: CE4_DAC_u4_5s; cd10973 409026011496 putative active site [active] 409026011497 putative metal binding site [ion binding]; other site 409026011498 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 409026011499 MatE; Region: MatE; cl10513 409026011500 MatE; Region: MatE; cl10513 409026011501 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 409026011502 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 409026011503 NifU-like domain; Region: NifU; cl00484 409026011504 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 409026011505 putative active site [active] 409026011506 Zn binding site [ion binding]; other site 409026011507 DNA utilization protein GntX; Provisional; Region: PRK11595 409026011508 putative pimeloyl-BioC--CoA transferase BioH; Region: bioH; TIGR01738 409026011509 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 409026011510 Sulfatase; Region: Sulfatase; cl10460 409026011511 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 409026011512 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 409026011513 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; cl00243 409026011514 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 409026011515 RNA binding site [nucleotide binding]; other site 409026011516 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 409026011517 DNA binding site [nucleotide binding] 409026011518 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 409026011519 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 409026011520 Collagenase; Region: Peptidase_M9; pfam01752 409026011521 Mor transcription activator family; Region: Mor; cl02360 409026011522 Peptidase S8 family domain in Thiazoline oxidase/subtilisin-like proteases; Region: Peptidases_S8_thiazoline_oxidase_subtilisin-like_p; cd07476 409026011523 putative active site [active] 409026011524 putative catalytic triad [active] 409026011525 cyanobactin maturation protease, PatA/PatG family; Region: protease_PatA; TIGR03895 409026011526 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 409026011527 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 409026011528 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 409026011529 domain; Region: GreA_GreB_N; pfam03449 409026011530 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 409026011531 osmolarity response regulator; Provisional; Region: ompR; PRK09468 409026011532 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 409026011533 active site 409026011534 phosphorylation site [posttranslational modification] 409026011535 intermolecular recognition site; other site 409026011536 dimerization interface [polypeptide binding]; other site 409026011537 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 409026011538 DNA binding site [nucleotide binding] 409026011539 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 409026011540 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 409026011541 dimerization interface [polypeptide binding]; other site 409026011542 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 409026011543 dimer interface [polypeptide binding]; other site 409026011544 phosphorylation site [posttranslational modification] 409026011545 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 409026011546 ATP binding site [chemical binding]; other site 409026011547 Mg2+ binding site [ion binding]; other site 409026011548 G-X-G motif; other site 409026011549 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 409026011550 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 409026011551 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 409026011552 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39C; cd02419 409026011553 putative active site [active] 409026011554 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 409026011555 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 409026011556 Walker A/P-loop; other site 409026011557 ATP binding site [chemical binding]; other site 409026011558 Q-loop/lid; other site 409026011559 ABC transporter signature motif; other site 409026011560 Walker B; other site 409026011561 D-loop; other site 409026011562 H-loop/switch region; other site 409026011563 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 409026011564 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 409026011565 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 409026011566 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 409026011567 catalytic triad [active] 409026011568 dimer interface [polypeptide binding]; other site 409026011569 Transcriptional regulators [Transcription]; Region: MarR; COG1846 409026011570 Helix-turn-helix domains; Region: HTH; cl00088 409026011571 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 409026011572 putative active site [active] 409026011573 putative metal binding residues [ion binding]; other site 409026011574 signature motif; other site 409026011575 putative triphosphate binding site [ion binding]; other site 409026011576 dimer interface [polypeptide binding]; other site 409026011577 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 409026011578 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 409026011579 DNA-binding site [nucleotide binding]; DNA binding site 409026011580 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 409026011581 pyridoxal 5'-phosphate binding site [chemical binding]; other site 409026011582 homodimer interface [polypeptide binding]; other site 409026011583 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 409026011584 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 409026011585 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 409026011586 active site 409026011587 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 409026011588 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 409026011589 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 409026011590 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 409026011591 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 409026011592 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 409026011593 active site 409026011594 purine riboside binding site [chemical binding]; other site 409026011595 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 409026011596 Peptidase family M9 N-terminal; Region: Peptidase_M9_N; pfam08453 409026011597 Collagenase; Region: Peptidase_M9; pfam01752 409026011598 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 409026011599 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 409026011600 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 409026011601 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 409026011602 active site 409026011603 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 409026011604 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 409026011605 FOG: PKD repeat [General function prediction only]; Region: COG3291 409026011606 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 409026011607 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 409026011608 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 409026011609 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 409026011610 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase (AAP)-like; Region: M28_AAP_like; cd05642 409026011611 putative metal binding site [ion binding]; other site 409026011612 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 409026011613 Interdomain contacts; other site 409026011614 Cytokine receptor motif; other site 409026011615 Transcriptional regulator [Transcription]; Region: LysR; COG0583 409026011616 Helix-turn-helix domains; Region: HTH; cl00088 409026011617 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 409026011618 dimerization interface [polypeptide binding]; other site 409026011619 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 409026011620 MatE; Region: MatE; cl10513 409026011621 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 409026011622 N-acetyl-D-glucosamine binding site [chemical binding]; other site 409026011623 catalytic residue [active] 409026011624 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 409026011625 LemA family; Region: LemA; cl00742 409026011626 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 409026011627 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 409026011628 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 409026011629 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 409026011630 putative active site [active] 409026011631 putative NTP binding site [chemical binding]; other site 409026011632 putative nucleic acid binding site [nucleotide binding]; other site 409026011633 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 409026011634 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 409026011635 Transposase; Region: DEDD_Tnp_IS110; pfam01548 409026011636 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 409026011637 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 409026011638 Transposase; Region: DEDD_Tnp_IS110; pfam01548 409026011639 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 409026011640 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 409026011641 Protein export membrane protein; Region: SecD_SecF; cl14618 409026011642 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 409026011643 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 409026011644 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 409026011645 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 409026011646 C-terminal domain interface [polypeptide binding]; other site 409026011647 GSH binding site (G-site) [chemical binding]; other site 409026011648 dimer interface [polypeptide binding]; other site 409026011649 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 409026011650 N-terminal domain interface [polypeptide binding]; other site 409026011651 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 409026011652 active site 409026011653 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 409026011654 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 409026011655 active site 409026011656 Zn binding site [ion binding]; other site 409026011657 putative bifunctional flagellar biosynthesis protein FliO/FliP; Provisional; Region: PRK12430 409026011658 glutathione reductase; Validated; Region: PRK06116 409026011659 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026011660 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 409026011661 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 409026011662 Helix-turn-helix domains; Region: HTH; cl00088 409026011663 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 409026011664 dimerization interface [polypeptide binding]; other site 409026011665 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 409026011666 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 409026011667 substrate binding pocket [chemical binding]; other site 409026011668 carnitine operon protein CaiE; Provisional; Region: PRK13627 409026011669 paaY-like: This group is composed by uncharacterized proteins with similarity to the protein product of the E. coli paaY gene, which is part of the paa gene cluster responsible for phenylacetic acid degradation. Proteins in this group are expected to...; Region: LbH_paaY_like; cd04745 409026011670 putative trimer interface [polypeptide binding]; other site 409026011671 putative metal binding site [ion binding]; other site 409026011672 enoyl-CoA hydratase; Region: PLN02864 409026011673 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 409026011674 active site 2 [active] 409026011675 active site 1 [active] 409026011676 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 409026011677 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 409026011678 substrate binding site [chemical binding]; other site 409026011679 oxyanion hole (OAH) forming residues; other site 409026011680 trimer interface [polypeptide binding]; other site 409026011681 putative crotonobetaine/carnitine-CoA ligase; Validated; Region: caiC; PRK08008 409026011682 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 409026011683 crotonobetainyl-CoA:carnitine CoA-transferase; Provisional; Region: PRK03525 409026011684 CoA-transferase family III; Region: CoA_transf_3; pfam02515 409026011685 crotonobetainyl-CoA dehydrogenase; Validated; Region: PRK03354 409026011686 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 409026011687 active site 409026011688 BCCT family transporter; Region: BCCT; cl00569 409026011689 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 409026011690 Ligand binding site [chemical binding]; other site 409026011691 Electron transfer flavoprotein domain; Region: ETF; pfam01012 409026011692 putative electron transfer flavoprotein FixB; Provisional; Region: fixB; PRK03363 409026011693 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 409026011694 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 409026011695 putative oxidoreductase FixC; Provisional; Region: PRK10157 409026011696 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026011697 ferredoxin-like protein FixX; Provisional; Region: PRK15449 409026011698 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 409026011699 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 409026011700 putative substrate translocation pore; other site 409026011701 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 409026011702 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 409026011703 TPR motif; other site 409026011704 binding surface 409026011705 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 409026011706 TPR motif; other site 409026011707 binding surface 409026011708 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 409026011709 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 409026011710 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 409026011711 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 409026011712 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 409026011713 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 409026011714 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 409026011715 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 409026011716 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 409026011717 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 409026011718 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 409026011719 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 409026011720 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026011721 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026011722 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 409026011723 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 409026011724 conserved cys residue [active] 409026011725 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 409026011726 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 409026011727 Zn2+ binding site [ion binding]; other site 409026011728 Mg2+ binding site [ion binding]; other site 409026011729 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 409026011730 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 ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 409026011731 Walker A/P-loop; other site 409026011732 ATP binding site [chemical binding]; other site 409026011733 Q-loop/lid; other site 409026011734 ABC transporter signature motif; other site 409026011735 Walker B; other site 409026011736 D-loop; other site 409026011737 H-loop/switch region; other site 409026011738 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 409026011739 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026011740 Walker A/P-loop; other site 409026011741 ATP binding site [chemical binding]; other site 409026011742 Q-loop/lid; other site 409026011743 ABC transporter signature motif; other site 409026011744 Walker B; other site 409026011745 D-loop; other site 409026011746 H-loop/switch region; other site 409026011747 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 409026011748 chorismate binding enzyme; Region: Chorismate_bind; cl10555 409026011749 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 409026011750 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 409026011751 Coenzyme A binding pocket [chemical binding]; other site 409026011752 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 409026011753 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 409026011754 active site 409026011755 phosphorylation site [posttranslational modification] 409026011756 intermolecular recognition site; other site 409026011757 dimerization interface [polypeptide binding]; other site 409026011758 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026011759 Walker A motif; other site 409026011760 ATP binding site [chemical binding]; other site 409026011761 Walker B motif; other site 409026011762 arginine finger; other site 409026011763 Helix-turn-helix domains; Region: HTH; cl00088 409026011764 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 409026011765 dimerization interface [polypeptide binding]; other site 409026011766 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 409026011767 dimer interface [polypeptide binding]; other site 409026011768 conserved gate region; other site 409026011769 putative PBP binding loops; other site 409026011770 ABC-ATPase subunit interface; other site 409026011771 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 409026011772 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 ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 409026011773 Walker A/P-loop; other site 409026011774 ATP binding site [chemical binding]; other site 409026011775 Q-loop/lid; other site 409026011776 ABC transporter signature motif; other site 409026011777 Walker B; other site 409026011778 D-loop; other site 409026011779 H-loop/switch region; other site 409026011780 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 409026011781 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 409026011782 GTP binding site; other site 409026011783 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoeA; Provisional; Region: PRK14491 409026011784 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 409026011785 Walker A motif; other site 409026011786 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 409026011787 dimer interface [polypeptide binding]; other site 409026011788 putative functional site; other site 409026011789 putative MPT binding site; other site 409026011790 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 409026011791 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 409026011792 FeS/SAM binding site; other site 409026011793 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 409026011794 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 409026011795 Catalytic site [active] 409026011796 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 409026011797 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 409026011798 Coenzyme A binding pocket [chemical binding]; other site 409026011799 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 409026011800 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 409026011801 DNA binding site [nucleotide binding] 409026011802 catalytic residue [active] 409026011803 H2TH interface [polypeptide binding]; other site 409026011804 putative catalytic residues [active] 409026011805 turnover-facilitating residue; other site 409026011806 intercalation triad [nucleotide binding]; other site 409026011807 8OG recognition residue [nucleotide binding]; other site 409026011808 putative reading head residues; other site 409026011809 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 409026011810 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 409026011811 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 409026011812 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 409026011813 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 409026011814 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 409026011815 active site 409026011816 (T/H)XGH motif; other site 409026011817 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 and...; Region: PseudoU_synth_RluCD_like; cd02869 409026011818 active site 409026011819 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 409026011820 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 409026011821 dimer interface [polypeptide binding]; other site 409026011822 phosphorylation site [posttranslational modification] 409026011823 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 409026011824 ATP binding site [chemical binding]; other site 409026011825 Mg2+ binding site [ion binding]; other site 409026011826 G-X-G motif; other site 409026011827 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 409026011828 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 409026011829 active site 409026011830 phosphorylation site [posttranslational modification] 409026011831 intermolecular recognition site; other site 409026011832 dimerization interface [polypeptide binding]; other site 409026011833 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 409026011834 DNA binding site [nucleotide binding] 409026011835 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 409026011836 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 409026011837 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 409026011838 Walker A/P-loop; other site 409026011839 ATP binding site [chemical binding]; other site 409026011840 Q-loop/lid; other site 409026011841 ABC transporter signature motif; other site 409026011842 Walker B; other site 409026011843 D-loop; other site 409026011844 H-loop/switch region; other site 409026011845 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 409026011846 dimer interface [polypeptide binding]; other site 409026011847 conserved gate region; other site 409026011848 putative PBP binding loops; other site 409026011849 ABC-ATPase subunit interface; other site 409026011850 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 409026011851 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 409026011852 MoaE homodimer interface [polypeptide binding]; other site 409026011853 MoaD interaction [polypeptide binding]; other site 409026011854 active site residues [active] 409026011855 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 409026011856 MoaE interaction surface [polypeptide binding]; other site 409026011857 MoeB interaction surface [polypeptide binding]; other site 409026011858 thiocarboxylated glycine; other site 409026011859 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 409026011860 trimer interface [polypeptide binding]; other site 409026011861 dimer interface [polypeptide binding]; other site 409026011862 putative active site [active] 409026011863 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 409026011864 MPT binding site; other site 409026011865 trimer interface [polypeptide binding]; other site 409026011866 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 409026011867 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 409026011868 FeS/SAM binding site; other site 409026011869 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 409026011870 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026011871 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 409026011872 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 409026011873 Ferredoxin [Energy production and conversion]; Region: COG1146 409026011874 Cache domain; Region: Cache_1; pfam02743 409026011875 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 409026011876 dimerization interface [polypeptide binding]; other site 409026011877 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 409026011878 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 409026011879 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 409026011880 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 409026011881 MOSC domain; Region: MOSC; pfam03473 409026011882 3-alpha domain; Region: 3-alpha; pfam03475 409026011883 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 409026011884 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 409026011885 metal binding site [ion binding]; metal-binding site 409026011886 active site 409026011887 I-site; other site 409026011888 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 409026011889 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; Region: ribokinase_pfkB_like; cl00192 409026011890 substrate binding site [chemical binding]; other site 409026011891 ATP binding site [chemical binding]; other site 409026011892 coproporphyrinogen III oxidase; Provisional; Region: PRK08629 409026011893 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 409026011894 FeS/SAM binding site; other site 409026011895 HemN C-terminal region; Region: HemN_C; pfam06969 409026011896 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 409026011897 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 409026011898 FeS/SAM binding site; other site 409026011899 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 409026011900 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 409026011901 4Fe-4S binding domain; Region: Fer4; cl02805 409026011902 Formylmethanofuran dehydrogenase subunit B [Energy production and conversion]; Region: FwdB; COG1029 409026011903 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 409026011904 [4Fe-4S] binding site [ion binding]; other site 409026011905 molybdopterin cofactor binding site; other site 409026011906 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 409026011907 molybdopterin cofactor binding site; other site 409026011908 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 409026011909 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 409026011910 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 409026011911 4Fe-4S binding domain; Region: Fer4; cl02805 409026011912 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 409026011913 [4Fe-4S] binding site [ion binding]; other site 409026011914 molybdopterin cofactor binding site; other site 409026011915 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 409026011916 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 409026011917 molybdopterin cofactor binding site; other site 409026011918 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 409026011919 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 409026011920 Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits [Energy production and conversion]; Region: COG4231 409026011921 4Fe-4S binding domain; Region: Fer4; cl02805 409026011922 4Fe-4S binding domain; Region: Fer4; cl02805 409026011923 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 409026011924 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 409026011925 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 409026011926 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 409026011927 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 409026011928 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 409026011929 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 409026011930 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 409026011931 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 409026011932 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 409026011933 S-adenosylmethionine binding site [chemical binding]; other site 409026011934 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 409026011935 UTRA domain; Region: UTRA; cl01230 409026011936 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4412 409026011937 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 409026011938 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 409026011939 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 409026011940 alpha-glucosidase; Provisional; Region: PRK10137 409026011941 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 409026011942 MarC family integral membrane protein; Region: MarC; cl00919 409026011943 Protein of unknown function (DUF833); Region: DUF833; cl01315 409026011944 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 409026011945 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 409026011946 putative acyl-acceptor binding pocket; other site 409026011947 LysE type translocator; Region: LysE; cl00565 409026011948 Sodium/glutamate symporter; Region: Glt_symporter; pfam03616 409026011949 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 409026011950 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 409026011951 putative ribose interaction site [chemical binding]; other site 409026011952 putative ADP binding site [chemical binding]; other site 409026011953 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 409026011954 active site 409026011955 nucleotide binding site [chemical binding]; other site 409026011956 HIGH motif; other site 409026011957 KMSKS motif; other site 409026011958 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 409026011959 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 409026011960 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 409026011961 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 409026011962 NADP binding site [chemical binding]; other site 409026011963 homopentamer interface [polypeptide binding]; other site 409026011964 substrate binding site [chemical binding]; other site 409026011965 active site 409026011966 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 409026011967 active site 409026011968 nucleotide binding site [chemical binding]; other site 409026011969 HIGH motif; other site 409026011970 KMSKS motif; other site 409026011971 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 409026011972 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 409026011973 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 409026011974 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 409026011975 Sialyltransferase PMO188; Region: PM0188; pfam11477 409026011976 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 409026011977 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 409026011978 putative active site [active] 409026011979 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cl15691 409026011980 ATP binding site [chemical binding]; other site 409026011981 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 409026011982 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 409026011983 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 409026011984 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 409026011985 Helix-turn-helix domains; Region: HTH; cl00088 409026011986 Helix-turn-helix domains; Region: HTH; cl00088 409026011987 Integrase core domain; Region: rve; cl01316 409026011988 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 409026011989 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); Region: KBL_like; cd06454 409026011990 substrate-cofactor binding pocket; other site 409026011991 pyridoxal 5'-phosphate binding site [chemical binding]; other site 409026011992 catalytic residue [active] 409026011993 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 409026011994 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 409026011995 NAD(P) binding site [chemical binding]; other site 409026011996 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 409026011997 active site residue [active] 409026011998 intramembrane serine protease GlpG; Provisional; Region: PRK10907 409026011999 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 409026012000 Rhomboid family; Region: Rhomboid; cl11446 409026012001 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 409026012002 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 409026012003 putative active site [active] 409026012004 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 409026012005 conserved cys residue [active] 409026012006 DNA polymerase I; Provisional; Region: PRK05755 409026012007 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 409026012008 active site 409026012009 metal binding site 1 [ion binding]; metal-binding site 409026012010 putative 5' ssDNA interaction site; other site 409026012011 metal binding site 3; metal-binding site 409026012012 metal binding site 2 [ion binding]; metal-binding site 409026012013 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 409026012014 putative DNA binding site [nucleotide binding]; other site 409026012015 putative metal binding site [ion binding]; other site 409026012016 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 409026012017 active site 409026012018 catalytic site [active] 409026012019 substrate binding site [chemical binding]; other site 409026012020 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 409026012021 active site 409026012022 DNA binding site [nucleotide binding] 409026012023 catalytic site [active] 409026012024 Predicted GTPase [General function prediction only]; Region: COG0218 409026012025 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 409026012026 G1 box; other site 409026012027 GTP/Mg2+ binding site [chemical binding]; other site 409026012028 Switch I region; other site 409026012029 G2 box; other site 409026012030 G3 box; other site 409026012031 Switch II region; other site 409026012032 G4 box; other site 409026012033 G5 box; other site 409026012034 Cytochrome c; Region: Cytochrom_C; cl11414 409026012035 Cytochrome c; Region: Cytochrom_C; cl11414 409026012036 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 409026012037 Protein of unknown function, DUF414; Region: DUF414; cl01172 409026012038 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 409026012039 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 409026012040 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 409026012041 FeS/SAM binding site; other site 409026012042 HemN C-terminal region; Region: HemN_C; pfam06969 409026012043 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 409026012044 lysophospholipase L2; Provisional; Region: PRK10749 409026012045 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 409026012046 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 409026012047 FHIPEP family; Region: FHIPEP; pfam00771 409026012048 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 409026012049 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 409026012050 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 409026012051 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 409026012052 FliP family; Region: FliP; cl00593 409026012053 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 409026012054 Flagellar motor switch protein [Cell motility and secretion]; Region: FliM; COG1868 409026012055 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 409026012056 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 409026012057 ligand binding site [chemical binding]; other site 409026012058 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 409026012059 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 409026012060 Walker A motif; other site 409026012061 ATP binding site [chemical binding]; other site 409026012062 Walker B motif; other site 409026012063 arginine finger; other site 409026012064 Helix-turn-helix domains; Region: HTH; cl00088 409026012065 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 409026012066 flagellar MS-ring protein; Reviewed; Region: fliF; PRK07193 409026012067 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 409026012068 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 409026012069 flagellar motor switch protein G; Reviewed; Region: fliG; PRK07194 409026012070 FliG C-terminal domain; Region: FliG_C; pfam01706 409026012071 flagellar assembly protein H; Provisional; Region: fliH; PRK13386 409026012072 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 409026012073 Flagellar assembly protein FliH; Region: FliH; pfam02108 409026012074 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 409026012075 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 409026012076 Walker A motif/ATP binding site; other site 409026012077 Walker B motif; other site 409026012078 NADH dehydrogenase subunit G; Validated; Region: PRK08493 409026012079 RNA polymerase sigma factor SigZ; Provisional; Region: PRK09637 409026012080 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 409026012081 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 409026012082 DNA binding residues [nucleotide binding] 409026012083 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 409026012084 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 409026012085 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 409026012086 N-terminal domain interface [polypeptide binding]; other site 409026012087 dimer interface [polypeptide binding]; other site 409026012088 substrate binding pocket (H-site) [chemical binding]; other site 409026012089 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 409026012090 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 409026012091 putative active site [active] 409026012092 putative NTP binding site [chemical binding]; other site 409026012093 putative nucleic acid binding site [nucleotide binding]; other site 409026012094 FlgN protein; Region: FlgN; cl09176 409026012095 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 409026012096 SAF domain; Region: SAF; cl00555 409026012097 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 409026012098 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 409026012099 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK12685 409026012100 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK06802 409026012101 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 409026012102 Flagellar hook capping protein; Region: FlgD; cl04347 409026012103 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 409026012104 flagellar hook protein FlgE; Validated; Region: flgE; PRK06803 409026012105 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 409026012106 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 409026012107 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 409026012108 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 409026012109 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 409026012110 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 409026012111 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 409026012112 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 409026012113 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 409026012114 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 409026012115 Flagellar L-ring protein; Region: FlgH; cl00905 409026012116 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 409026012117 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 409026012118 Rod binding protein; Region: Rod-binding; cl01626 409026012119 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07191 409026012120 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 409026012121 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 409026012122 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK07192 409026012123 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 409026012124 Flagellin N-methylase; Region: FliB; cl00497 409026012125 flagellin; Provisional; Region: PRK12802 409026012126 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 409026012127 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 409026012128 flagellar capping protein; Reviewed; Region: fliD; PRK08032 409026012129 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 409026012130 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 409026012131 Flagellar protein FliS; Region: FliS; cl00654 409026012132 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 409026012133 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 409026012134 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 409026012135 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 409026012136 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 409026012137 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 409026012138 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 409026012139 DNA binding residues [nucleotide binding] 409026012140 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 409026012141 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 409026012142 hypothetical protein; Validated; Region: PRK06778 409026012143 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 409026012144 ligand binding site [chemical binding]; other site 409026012145 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 409026012146 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 409026012147 4Fe-4S binding domain; Region: Fer4_5; pfam12801 409026012148 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 409026012149 naphthoate synthase; Validated; Region: PRK08321 409026012150 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 409026012151 substrate binding site [chemical binding]; other site 409026012152 oxyanion hole (OAH) forming residues; other site 409026012153 trimer interface [polypeptide binding]; other site 409026012154 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 409026012155 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 409026012156 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 409026012157 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 409026012158 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 409026012159 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 409026012160 dimer interface [polypeptide binding]; other site 409026012161 conserved gate region; other site 409026012162 putative PBP binding loops; other site 409026012163 ABC-ATPase subunit interface; other site 409026012164 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 409026012165 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 409026012166 dimer interface [polypeptide binding]; other site 409026012167 conserved gate region; other site 409026012168 putative PBP binding loops; other site 409026012169 ABC-ATPase subunit interface; other site 409026012170 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14253 409026012171 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 409026012172 Walker A/P-loop; other site 409026012173 ATP binding site [chemical binding]; other site 409026012174 Q-loop/lid; other site 409026012175 ABC transporter signature motif; other site 409026012176 Walker B; other site 409026012177 D-loop; other site 409026012178 H-loop/switch region; other site 409026012179 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026012180 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 409026012181 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 409026012182 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 409026012183 glutaminase active site [active] 409026012184 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 409026012185 dimer interface [polypeptide binding]; other site 409026012186 active site 409026012187 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 409026012188 dimer interface [polypeptide binding]; other site 409026012189 active site 409026012190 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 409026012191 Helix-turn-helix domains; Region: HTH; cl00088 409026012192 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 409026012193 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 409026012194 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 409026012195 N-terminal plug; other site 409026012196 ligand-binding site [chemical binding]; other site 409026012197 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 409026012198 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 409026012199 Substrate binding site; other site 409026012200 Mg++ binding site; other site 409026012201 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 409026012202 active site 409026012203 substrate binding site [chemical binding]; other site 409026012204 CoA binding site [chemical binding]; other site 409026012205 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 409026012206 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 409026012207 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 409026012208 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 409026012209 alpha subunit interaction interface [polypeptide binding]; other site 409026012210 Walker A motif; other site 409026012211 ATP binding site [chemical binding]; other site 409026012212 Walker B motif; other site 409026012213 inhibitor binding site; inhibition site 409026012214 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 409026012215 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; cl00365 409026012216 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 409026012217 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 409026012218 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 409026012219 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 409026012220 beta subunit interaction interface [polypeptide binding]; other site 409026012221 Walker A motif; other site 409026012222 ATP binding site [chemical binding]; other site 409026012223 Walker B motif; other site 409026012224 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 409026012225 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl15360 409026012226 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 409026012227 Mitochondrial ATP synthase B chain precursor (ATP-synt_B); Region: Mt_ATP-synt_B; cl07975 409026012228 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 409026012229 ATP synthase subunit C; Region: ATP-synt_C; cl00466 409026012230 ATP synthase A chain; Region: ATP-synt_A; cl00413 409026012231 ATP synthase I chain; Region: ATP_synt_I; cl09170 409026012232 ParB-like partition proteins; Region: parB_part; TIGR00180 409026012233 ParB-like nuclease domain; Region: ParBc; cl02129 409026012234 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 409026012235 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 409026012236 P-loop; other site 409026012237 Magnesium ion binding site [ion binding]; other site 409026012238 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 409026012239 Magnesium ion binding site [ion binding]; other site 409026012240 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 409026012241 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 409026012242 S-adenosylmethionine binding site [chemical binding]; other site 409026012243 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 409026012244 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 409026012245 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440