-- dump date 20140620_063025 -- class Genbank::misc_feature -- table misc_feature_note -- id note 326297000001 FMN-binding protein MioC; Provisional; Region: PRK09004 326297000002 hypothetical protein; Provisional; Region: PRK05421 326297000003 putative catalytic site [active] 326297000004 putative metal binding site [ion binding]; other site 326297000005 putative phosphate binding site [ion binding]; other site 326297000006 S-formylglutathione hydrolase; Region: PLN02442 326297000007 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 326297000008 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 326297000009 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 326297000010 substrate binding site [chemical binding]; other site 326297000011 catalytic Zn binding site [ion binding]; other site 326297000012 NAD binding site [chemical binding]; other site 326297000013 structural Zn binding site [ion binding]; other site 326297000014 dimer interface [polypeptide binding]; other site 326297000015 Transcriptional regulator [Transcription]; Region: LysR; COG0583 326297000016 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297000017 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 326297000018 putative effector binding pocket; other site 326297000019 putative dimerization interface [polypeptide binding]; other site 326297000020 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 326297000021 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 326297000022 active site 326297000023 FMN binding site [chemical binding]; other site 326297000024 substrate binding site [chemical binding]; other site 326297000025 putative catalytic residue [active] 326297000026 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 326297000027 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 326297000028 trmE is a tRNA modification GTPase; Region: trmE; cd04164 326297000029 G1 box; other site 326297000030 GTP/Mg2+ binding site [chemical binding]; other site 326297000031 Switch I region; other site 326297000032 G2 box; other site 326297000033 Switch II region; other site 326297000034 G3 box; other site 326297000035 G4 box; other site 326297000036 G5 box; other site 326297000037 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 326297000038 membrane protein insertase; Provisional; Region: PRK01318 326297000039 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 326297000040 Haemolytic domain; Region: Haemolytic; pfam01809 326297000041 ribonuclease P; Reviewed; Region: rnpA; PRK01732 326297000042 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 326297000043 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 326297000044 DnaA N-terminal domain; Region: DnaA_N; pfam11638 326297000045 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 326297000046 Walker A motif; other site 326297000047 ATP binding site [chemical binding]; other site 326297000048 Walker B motif; other site 326297000049 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; cl17189 326297000050 arginine finger; other site 326297000051 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 326297000052 DnaA box-binding interface [nucleotide binding]; other site 326297000053 DNA polymerase III subunit beta; Validated; Region: PRK05643 326297000054 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 326297000055 putative DNA binding surface [nucleotide binding]; other site 326297000056 dimer interface [polypeptide binding]; other site 326297000057 beta-clamp/clamp loader binding surface; other site 326297000058 beta-clamp/translesion DNA polymerase binding surface; other site 326297000059 recombination protein F; Reviewed; Region: recF; PRK00064 326297000060 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 326297000061 Walker A/P-loop; other site 326297000062 ATP binding site [chemical binding]; other site 326297000063 Q-loop/lid; other site 326297000064 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 326297000065 ABC transporter signature motif; other site 326297000066 Walker B; other site 326297000067 D-loop; other site 326297000068 H-loop/switch region; other site 326297000069 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 326297000070 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 326297000071 ATP binding site [chemical binding]; other site 326297000072 Mg2+ binding site [ion binding]; other site 326297000073 G-X-G motif; other site 326297000074 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 326297000075 anchoring element; other site 326297000076 dimer interface [polypeptide binding]; other site 326297000077 ATP binding site [chemical binding]; other site 326297000078 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 326297000079 active site 326297000080 putative metal-binding site [ion binding]; other site 326297000081 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 326297000082 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 326297000083 nudix motif; other site 326297000084 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 326297000085 putative substrate binding pocket [chemical binding]; other site 326297000086 AC domain interface; other site 326297000087 catalytic triad [active] 326297000088 AB domain interface; other site 326297000089 interchain disulfide; other site 326297000090 Predicted membrane protein [Function unknown]; Region: COG3817 326297000091 Protein of unknown function (DUF979); Region: DUF979; pfam06166 326297000092 Protein of unknown function (DUF969); Region: DUF969; pfam06149 326297000093 uncharacterized proteins similar to the Aspergillus nidulans lactam utilization protein LamB; Region: LamB_YcsF_like_1; cd10801 326297000094 putative active site [active] 326297000095 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 326297000096 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 326297000097 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 326297000098 HDOD domain; Region: HDOD; pfam08668 326297000099 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 326297000100 Zn2+ binding site [ion binding]; other site 326297000101 Mg2+ binding site [ion binding]; other site 326297000102 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 326297000103 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 326297000104 dimer interface [polypeptide binding]; other site 326297000105 motif 1; other site 326297000106 active site 326297000107 motif 2; other site 326297000108 motif 3; other site 326297000109 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 326297000110 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 326297000111 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 326297000112 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 326297000113 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 326297000114 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 326297000115 Amidohydrolase family; Region: Amidohydro_1; pfam01979 326297000116 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 326297000117 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 326297000118 CPxP motif; other site 326297000119 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 326297000120 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 326297000121 dimer interface [polypeptide binding]; other site 326297000122 putative CheW interface [polypeptide binding]; other site 326297000123 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 326297000124 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 326297000125 dimer interface [polypeptide binding]; other site 326297000126 active site 326297000127 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 326297000128 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 326297000129 substrate binding site [chemical binding]; other site 326297000130 oxyanion hole (OAH) forming residues; other site 326297000131 trimer interface [polypeptide binding]; other site 326297000132 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 326297000133 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 326297000134 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 326297000135 proline dipeptidase; Provisional; Region: PRK13607 326297000136 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 326297000137 active site 326297000138 hypothetical protein; Provisional; Region: PRK11568 326297000139 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 326297000140 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 326297000141 Cation transport protein; Region: TrkH; cl17365 326297000142 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 326297000143 Flavodoxin domain; Region: Flavodoxin_5; cl17428 326297000144 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 326297000145 dimerization interface [polypeptide binding]; other site 326297000146 putative DNA binding site [nucleotide binding]; other site 326297000147 putative Zn2+ binding site [ion binding]; other site 326297000148 Flavodoxin domain; Region: Flavodoxin_5; cl17428 326297000149 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 326297000150 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 326297000151 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 326297000152 TrkA-N domain; Region: TrkA_N; pfam02254 326297000153 TrkA-C domain; Region: TrkA_C; pfam02080 326297000154 TrkA-N domain; Region: TrkA_N; pfam02254 326297000155 TrkA-C domain; Region: TrkA_C; pfam02080 326297000156 16S rRNA methyltransferase B; Provisional; Region: PRK10901 326297000157 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 326297000158 putative RNA binding site [nucleotide binding]; other site 326297000159 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 326297000160 S-adenosylmethionine binding site [chemical binding]; other site 326297000161 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 326297000162 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 326297000163 putative active site [active] 326297000164 substrate binding site [chemical binding]; other site 326297000165 putative cosubstrate binding site; other site 326297000166 catalytic site [active] 326297000167 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 326297000168 substrate binding site [chemical binding]; other site 326297000169 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 326297000170 active site 326297000171 catalytic residues [active] 326297000172 metal binding site [ion binding]; metal-binding site 326297000173 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 326297000174 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 326297000175 DNA protecting protein DprA; Region: dprA; TIGR00732 326297000176 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 326297000177 Protein of unknown function (DUF494); Region: DUF494; pfam04361 326297000178 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 326297000179 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 326297000180 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 326297000181 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 326297000182 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 326297000183 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 326297000184 apolar tunnel; other site 326297000185 heme binding site [chemical binding]; other site 326297000186 dimerization interface [polypeptide binding]; other site 326297000187 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 326297000188 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 326297000189 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 326297000190 shikimate binding site; other site 326297000191 NAD(P) binding site [chemical binding]; other site 326297000192 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 326297000193 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 326297000194 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 326297000195 trimer interface [polypeptide binding]; other site 326297000196 putative metal binding site [ion binding]; other site 326297000197 Flagellin N-methylase; Region: FliB; pfam03692 326297000198 Transcriptional regulator; Region: Rrf2; cl17282 326297000199 Rrf2 family protein; Region: rrf2_super; TIGR00738 326297000200 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 326297000201 NodB motif; other site 326297000202 putative active site [active] 326297000203 putative catalytic site [active] 326297000204 Zn binding site [ion binding]; other site 326297000205 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 326297000206 C-terminal peptidase (prc); Region: prc; TIGR00225 326297000207 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 326297000208 protein binding site [polypeptide binding]; other site 326297000209 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 326297000210 Catalytic dyad [active] 326297000211 AmiB activator; Provisional; Region: PRK11637 326297000212 Peptidase family M23; Region: Peptidase_M23; pfam01551 326297000213 phosphoglyceromutase; Provisional; Region: PRK05434 326297000214 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 326297000215 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 326297000216 active site residue [active] 326297000217 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 326297000218 SecA binding site; other site 326297000219 Preprotein binding site; other site 326297000220 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 326297000221 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 326297000222 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 326297000223 Predicted flavoproteins [General function prediction only]; Region: COG2081 326297000224 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 326297000225 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 326297000226 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297000227 active site 326297000228 phosphorylation site [posttranslational modification] 326297000229 intermolecular recognition site; other site 326297000230 dimerization interface [polypeptide binding]; other site 326297000231 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297000232 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297000233 metal binding site [ion binding]; metal-binding site 326297000234 active site 326297000235 I-site; other site 326297000236 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 326297000237 NMT1/THI5 like; Region: NMT1; pfam09084 326297000238 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 326297000239 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 326297000240 dimer interface [polypeptide binding]; other site 326297000241 phosphorylation site [posttranslational modification] 326297000242 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 326297000243 ATP binding site [chemical binding]; other site 326297000244 Mg2+ binding site [ion binding]; other site 326297000245 G-X-G motif; other site 326297000246 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 326297000247 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297000248 active site 326297000249 phosphorylation site [posttranslational modification] 326297000250 intermolecular recognition site; other site 326297000251 dimerization interface [polypeptide binding]; other site 326297000252 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 326297000253 putative binding surface; other site 326297000254 active site 326297000255 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 326297000256 MPT binding site; other site 326297000257 trimer interface [polypeptide binding]; other site 326297000258 NlpC/P60 family; Region: NLPC_P60; pfam00877 326297000259 HutD; Region: HutD; pfam05962 326297000260 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 326297000261 Coenzyme A binding pocket [chemical binding]; other site 326297000262 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 326297000263 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 326297000264 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 326297000265 active site 326297000266 Predicted enolase-phosphatase [Energy production and conversion]; Region: COG4229 326297000267 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 326297000268 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 326297000269 Helix-turn-helix domain; Region: HTH_18; pfam12833 326297000270 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 326297000271 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 326297000272 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 326297000273 Helix-Turn-Helix DNA binding domain of the Cfa transcription regulator; Region: HTH_Cfa; cd04789 326297000274 DNA binding residues [nucleotide binding] 326297000275 putative dimer interface [polypeptide binding]; other site 326297000276 Methyltransferase domain; Region: Methyltransf_23; pfam13489 326297000277 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 326297000278 S-adenosylmethionine binding site [chemical binding]; other site 326297000279 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 326297000280 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 326297000281 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 326297000282 imidazolonepropionase; Validated; Region: PRK09356 326297000283 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 326297000284 active site 326297000285 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 326297000286 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 326297000287 DNA-binding site [nucleotide binding]; DNA binding site 326297000288 UTRA domain; Region: UTRA; pfam07702 326297000289 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 326297000290 PAS fold; Region: PAS_3; pfam08447 326297000291 putative active site [active] 326297000292 heme pocket [chemical binding]; other site 326297000293 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297000294 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297000295 metal binding site [ion binding]; metal-binding site 326297000296 active site 326297000297 I-site; other site 326297000298 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 326297000299 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 326297000300 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 326297000301 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 326297000302 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 326297000303 adenosine deaminase; Provisional; Region: PRK09358 326297000304 active site 326297000305 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 326297000306 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 326297000307 FeS/SAM binding site; other site 326297000308 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 326297000309 HemN C-terminal domain; Region: HemN_C; pfam06969 326297000310 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 326297000311 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 326297000312 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 326297000313 active site 326297000314 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 326297000315 Der GTPase activator (YihI); Region: YihI; pfam04220 326297000316 Methyltransferase domain; Region: Methyltransf_23; pfam13489 326297000317 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 326297000318 Cytochrome c553 [Energy production and conversion]; Region: COG2863 326297000319 Cytochrome c; Region: Cytochrom_C; cl11414 326297000320 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 326297000321 G1 box; other site 326297000322 GTP/Mg2+ binding site [chemical binding]; other site 326297000323 Switch I region; other site 326297000324 G2 box; other site 326297000325 G3 box; other site 326297000326 Switch II region; other site 326297000327 G4 box; other site 326297000328 G5 box; other site 326297000329 DNA polymerase I; Provisional; Region: PRK05755 326297000330 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 326297000331 active site 326297000332 metal binding site 1 [ion binding]; metal-binding site 326297000333 putative 5' ssDNA interaction site; other site 326297000334 metal binding site 3; metal-binding site 326297000335 metal binding site 2 [ion binding]; metal-binding site 326297000336 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 326297000337 putative DNA binding site [nucleotide binding]; other site 326297000338 putative metal binding site [ion binding]; other site 326297000339 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 326297000340 active site 326297000341 catalytic site [active] 326297000342 substrate binding site [chemical binding]; other site 326297000343 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 326297000344 active site 326297000345 DNA binding site [nucleotide binding] 326297000346 catalytic site [active] 326297000347 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 326297000348 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 326297000349 conserved cys residue [active] 326297000350 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 326297000351 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 326297000352 Rhomboid family; Region: Rhomboid; pfam01694 326297000353 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 326297000354 active site residue [active] 326297000355 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 326297000356 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 326297000357 NAD(P) binding site [chemical binding]; other site 326297000358 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 326297000359 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 326297000360 substrate-cofactor binding pocket; other site 326297000361 pyridoxal 5'-phosphate binding site [chemical binding]; other site 326297000362 catalytic residue [active] 326297000363 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 326297000364 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 326297000365 Bacterial transcriptional repressor; Region: TetR; pfam13972 326297000366 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 326297000367 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 326297000368 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 326297000369 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 326297000370 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 326297000371 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 326297000372 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 326297000373 putative active site [active] 326297000374 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 326297000375 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 326297000376 putative ADP-binding pocket [chemical binding]; other site 326297000377 WavE lipopolysaccharide synthesis; Region: WavE; pfam07507 326297000378 GT2_BcbE_like is likely involved in the biosynthesis of the polysaccharide capsule; Region: GT2_BcE_like; cd04183 326297000379 Ligand binding site; other site 326297000380 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 326297000381 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 326297000382 active site 326297000383 Aminoglycoside/hydroxyurea antibiotic resistance kinase; Region: APH_6_hur; cl17810 326297000384 capsule biosynthesis phosphatase; Region: EcbF-BcbF; TIGR01689 326297000385 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 326297000386 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 326297000387 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 326297000388 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 326297000389 active site 326297000390 (T/H)XGH motif; other site 326297000391 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 326297000392 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 326297000393 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 326297000394 Ligand binding site; other site 326297000395 Putative Catalytic site; other site 326297000396 DXD motif; other site 326297000397 Uncharacterized conserved protein [Function unknown]; Region: COG0398 326297000398 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 326297000399 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 326297000400 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 326297000401 Neutral sphingomyelinases (nSMase) catalyze the hydrolysis of sphingomyelin in biological membranes to ceramide and phosphorylcholine; Region: nSMase; cd09078 326297000402 putative catalytic site [active] 326297000403 metal binding site A [ion binding]; metal-binding site 326297000404 phosphate binding site [ion binding]; other site 326297000405 metal binding site C [ion binding]; metal-binding site 326297000406 metal binding site B [ion binding]; metal-binding site 326297000407 EamA-like transporter family; Region: EamA; pfam00892 326297000408 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 326297000409 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 326297000410 DNA binding site [nucleotide binding] 326297000411 catalytic residue [active] 326297000412 H2TH interface [polypeptide binding]; other site 326297000413 putative catalytic residues [active] 326297000414 turnover-facilitating residue; other site 326297000415 intercalation triad [nucleotide binding]; other site 326297000416 8OG recognition residue [nucleotide binding]; other site 326297000417 putative reading head residues; other site 326297000418 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 326297000419 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 326297000420 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 326297000421 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 326297000422 FeS/SAM binding site; other site 326297000423 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 326297000424 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoeA; Provisional; Region: PRK14491 326297000425 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 326297000426 Walker A motif; other site 326297000427 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 326297000428 dimer interface [polypeptide binding]; other site 326297000429 putative functional site; other site 326297000430 putative MPT binding site; other site 326297000431 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 326297000432 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 326297000433 GTP binding site; other site 326297000434 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 326297000435 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 326297000436 Walker A/P-loop; other site 326297000437 ATP binding site [chemical binding]; other site 326297000438 Q-loop/lid; other site 326297000439 ABC transporter signature motif; other site 326297000440 Walker B; other site 326297000441 D-loop; other site 326297000442 H-loop/switch region; other site 326297000443 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 326297000444 dimer interface [polypeptide binding]; other site 326297000445 conserved gate region; other site 326297000446 putative PBP binding loops; other site 326297000447 ABC-ATPase subunit interface; other site 326297000448 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 326297000449 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 326297000450 dimerization interface [polypeptide binding]; other site 326297000451 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 326297000452 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297000453 active site 326297000454 phosphorylation site [posttranslational modification] 326297000455 intermolecular recognition site; other site 326297000456 dimerization interface [polypeptide binding]; other site 326297000457 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 326297000458 Walker A motif; other site 326297000459 ATP binding site [chemical binding]; other site 326297000460 Walker B motif; other site 326297000461 arginine finger; other site 326297000462 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 326297000463 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 326297000464 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 326297000465 dimer interface [polypeptide binding]; other site 326297000466 phosphorylation site [posttranslational modification] 326297000467 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 326297000468 ATP binding site [chemical binding]; other site 326297000469 G-X-G motif; other site 326297000470 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 326297000471 Coenzyme A binding pocket [chemical binding]; other site 326297000472 hypothetical protein; Provisional; Region: PRK11212 326297000473 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 326297000474 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 326297000475 substrate binding pocket [chemical binding]; other site 326297000476 membrane-bound complex binding site; other site 326297000477 hinge residues; other site 326297000478 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 326297000479 chorismate binding enzyme; Region: Chorismate_bind; cl10555 326297000480 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 326297000481 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 326297000482 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 326297000483 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 326297000484 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 326297000485 Walker A/P-loop; other site 326297000486 ATP binding site [chemical binding]; other site 326297000487 Q-loop/lid; other site 326297000488 ABC transporter signature motif; other site 326297000489 Walker B; other site 326297000490 D-loop; other site 326297000491 H-loop/switch region; other site 326297000492 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 326297000493 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 326297000494 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 326297000495 Walker A/P-loop; other site 326297000496 Walker A/P-loop; other site 326297000497 ATP binding site [chemical binding]; other site 326297000498 ATP binding site [chemical binding]; other site 326297000499 Q-loop/lid; other site 326297000500 ABC transporter signature motif; other site 326297000501 Walker B; other site 326297000502 D-loop; other site 326297000503 H-loop/switch region; other site 326297000504 Cobalt transport protein; Region: CbiQ; cl00463 326297000505 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 326297000506 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 326297000507 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 326297000508 Zn2+ binding site [ion binding]; other site 326297000509 Mg2+ binding site [ion binding]; other site 326297000510 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 326297000511 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 326297000512 ATP binding site [chemical binding]; other site 326297000513 substrate interface [chemical binding]; other site 326297000514 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 326297000515 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 326297000516 dimer interface [polypeptide binding]; other site 326297000517 putative functional site; other site 326297000518 putative MPT binding site; other site 326297000519 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 326297000520 HlyD family secretion protein; Region: HlyD_3; pfam13437 326297000521 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 326297000522 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 326297000523 Ferritin-like domain; Region: Ferritin; pfam00210 326297000524 ferroxidase diiron center [ion binding]; other site 326297000525 Nitrate and nitrite sensing; Region: NIT; pfam08376 326297000526 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 326297000527 PAS domain; Region: PAS_9; pfam13426 326297000528 putative active site [active] 326297000529 heme pocket [chemical binding]; other site 326297000530 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297000531 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297000532 metal binding site [ion binding]; metal-binding site 326297000533 active site 326297000534 I-site; other site 326297000535 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 326297000536 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 326297000537 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 326297000538 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 326297000539 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 326297000540 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 326297000541 GIY-YIG motif/motif A; other site 326297000542 putative active site [active] 326297000543 putative metal binding site [ion binding]; other site 326297000544 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 326297000545 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297000546 active site 326297000547 phosphorylation site [posttranslational modification] 326297000548 intermolecular recognition site; other site 326297000549 dimerization interface [polypeptide binding]; other site 326297000550 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 326297000551 DNA binding site [nucleotide binding] 326297000552 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 326297000553 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 326297000554 dimer interface [polypeptide binding]; other site 326297000555 phosphorylation site [posttranslational modification] 326297000556 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; cd01610 326297000557 active site 326297000558 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 326297000559 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 326297000560 Methyltransferase domain; Region: Methyltransf_31; pfam13847 326297000561 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 326297000562 S-adenosylmethionine binding site [chemical binding]; other site 326297000563 Peptidase S8 family domain, uncharacterized subfamily 3; Region: Peptidases_S8_3; cd04852 326297000564 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 326297000565 active site 326297000566 catalytic triad [active] 326297000567 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 326297000568 PA/protease or protease-like domain interface [polypeptide binding]; other site 326297000569 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 326297000570 catalytic residues [active] 326297000571 MltA-interacting protein MipA; Region: MipA; cl01504 326297000572 Protein of unknown function (DUF3019); Region: DUF3019; pfam11456 326297000573 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 326297000574 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297000575 active site 326297000576 phosphorylation site [posttranslational modification] 326297000577 intermolecular recognition site; other site 326297000578 dimerization interface [polypeptide binding]; other site 326297000579 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 326297000580 DNA binding site [nucleotide binding] 326297000581 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 326297000582 dimer interface [polypeptide binding]; other site 326297000583 phosphorylation site [posttranslational modification] 326297000584 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 326297000585 ATP binding site [chemical binding]; other site 326297000586 G-X-G motif; other site 326297000587 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 326297000588 CPE1046 is an uncharacterized Clostridium perfringens protein with a glycosyl hydrolase family 31 (GH31) domain. The domain architecture of CPE1046 and its orthologs includes a C-terminal fibronectin type 3 (FN3) domain and a coagulation factor 5/8 type...; Region: GH31_CPE1046; cd06596 326297000589 putative active site [active] 326297000590 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 326297000591 putative catalytic site [active] 326297000592 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 326297000593 NPCBM/NEW2 domain; Region: NPCBM; pfam08305 326297000594 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 326297000595 Transcriptional regulator [Transcription]; Region: LysR; COG0583 326297000596 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297000597 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 326297000598 dimerization interface [polypeptide binding]; other site 326297000599 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 326297000600 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 326297000601 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 326297000602 active site 326297000603 FMN binding site [chemical binding]; other site 326297000604 substrate binding site [chemical binding]; other site 326297000605 3Fe-4S cluster binding site [ion binding]; other site 326297000606 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_4; cd06241 326297000607 putative active site [active] 326297000608 Zn binding site [ion binding]; other site 326297000609 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 326297000610 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 326297000611 Uncharacterized conserved protein [Function unknown]; Region: COG3791 326297000612 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 326297000613 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 326297000614 active site 326297000615 substrate-binding site [chemical binding]; other site 326297000616 metal-binding site [ion binding] 326297000617 ATP binding site [chemical binding]; other site 326297000618 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 326297000619 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 326297000620 dimerization interface [polypeptide binding]; other site 326297000621 domain crossover interface; other site 326297000622 redox-dependent activation switch; other site 326297000623 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 326297000624 RNA binding surface [nucleotide binding]; other site 326297000625 type II secretion system protein C; Region: typeII_sec_gspC; TIGR01713 326297000626 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 326297000627 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 326297000628 type II secretion system protein D; Region: type_II_gspD; TIGR02517 326297000629 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 326297000630 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 326297000631 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 326297000632 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 326297000633 type II secretion system protein E; Region: type_II_gspE; TIGR02533 326297000634 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 326297000635 Walker A motif; other site 326297000636 ATP binding site [chemical binding]; other site 326297000637 Walker B motif; other site 326297000638 type II secretion system protein F; Region: GspF; TIGR02120 326297000639 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 326297000640 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 326297000641 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 326297000642 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 326297000643 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 326297000644 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 326297000645 Type II transport protein GspH; Region: GspH; pfam12019 326297000646 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 326297000647 type II secretion system protein I; Region: gspI; TIGR01707 326297000648 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 326297000649 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 326297000650 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 326297000651 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 326297000652 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 326297000653 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 326297000654 GspL periplasmic domain; Region: GspL_C; pfam12693 326297000655 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 326297000656 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 326297000657 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 326297000658 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 326297000659 motif II; other site 326297000660 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 326297000661 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 326297000662 dimer interface [polypeptide binding]; other site 326297000663 ADP-ribose binding site [chemical binding]; other site 326297000664 active site 326297000665 nudix motif; other site 326297000666 metal binding site [ion binding]; metal-binding site 326297000667 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 326297000668 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 326297000669 active site 326297000670 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 326297000671 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 326297000672 Coenzyme A binding pocket [chemical binding]; other site 326297000673 WHG domain; Region: WHG; pfam13305 326297000674 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 326297000675 putative substrate translocation pore; other site 326297000676 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 326297000677 putative acyl-acceptor binding pocket; other site 326297000678 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 326297000679 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 326297000680 active site residue [active] 326297000681 selenophosphate synthetase; Provisional; Region: PRK00943 326297000682 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 326297000683 dimerization interface [polypeptide binding]; other site 326297000684 putative ATP binding site [chemical binding]; other site 326297000685 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 326297000686 Fatty acid desaturase; Region: FA_desaturase; pfam00487 326297000687 Di-iron ligands [ion binding]; other site 326297000688 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 326297000689 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 326297000690 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 326297000691 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 326297000692 S-adenosylmethionine binding site [chemical binding]; other site 326297000693 glutamate racemase; Provisional; Region: PRK00865 326297000694 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 326297000695 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 326297000696 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 326297000697 FAD binding domain; Region: FAD_binding_4; pfam01565 326297000698 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 326297000699 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 326297000700 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 326297000701 dimerization interface [polypeptide binding]; other site 326297000702 putative Zn2+ binding site [ion binding]; other site 326297000703 putative DNA binding site [nucleotide binding]; other site 326297000704 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 326297000705 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 326297000706 pantothenate kinase; Provisional; Region: PRK05439 326297000707 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...; Region: PanK; cd02025 326297000708 ATP-binding site [chemical binding]; other site 326297000709 CoA-binding site [chemical binding]; other site 326297000710 Mg2+-binding site [ion binding]; other site 326297000711 elongation factor Tu; Reviewed; Region: PRK00049 326297000712 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 326297000713 G1 box; other site 326297000714 GEF interaction site [polypeptide binding]; other site 326297000715 GTP/Mg2+ binding site [chemical binding]; other site 326297000716 Switch I region; other site 326297000717 G2 box; other site 326297000718 G3 box; other site 326297000719 Switch II region; other site 326297000720 G4 box; other site 326297000721 G5 box; other site 326297000722 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 326297000723 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 326297000724 Antibiotic Binding Site [chemical binding]; other site 326297000725 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 326297000726 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 326297000727 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 326297000728 putative homodimer interface [polypeptide binding]; other site 326297000729 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 326297000730 heterodimer interface [polypeptide binding]; other site 326297000731 homodimer interface [polypeptide binding]; other site 326297000732 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 326297000733 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 326297000734 23S rRNA interface [nucleotide binding]; other site 326297000735 L7/L12 interface [polypeptide binding]; other site 326297000736 putative thiostrepton binding site; other site 326297000737 L25 interface [polypeptide binding]; other site 326297000738 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 326297000739 mRNA/rRNA interface [nucleotide binding]; other site 326297000740 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 326297000741 23S rRNA interface [nucleotide binding]; other site 326297000742 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 326297000743 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 326297000744 core dimer interface [polypeptide binding]; other site 326297000745 peripheral dimer interface [polypeptide binding]; other site 326297000746 L10 interface [polypeptide binding]; other site 326297000747 L11 interface [polypeptide binding]; other site 326297000748 putative EF-G interaction site [polypeptide binding]; other site 326297000749 putative EF-Tu interaction site [polypeptide binding]; other site 326297000750 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 326297000751 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 326297000752 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 326297000753 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 326297000754 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 326297000755 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 326297000756 RPB3 interaction site [polypeptide binding]; other site 326297000757 RPB1 interaction site [polypeptide binding]; other site 326297000758 RPB11 interaction site [polypeptide binding]; other site 326297000759 RPB10 interaction site [polypeptide binding]; other site 326297000760 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 326297000761 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 326297000762 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 326297000763 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 326297000764 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 326297000765 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 326297000766 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 326297000767 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 326297000768 DNA binding site [nucleotide binding] 326297000769 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 326297000770 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 326297000771 S17 interaction site [polypeptide binding]; other site 326297000772 S8 interaction site; other site 326297000773 16S rRNA interaction site [nucleotide binding]; other site 326297000774 streptomycin interaction site [chemical binding]; other site 326297000775 23S rRNA interaction site [nucleotide binding]; other site 326297000776 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 326297000777 30S ribosomal protein S7; Validated; Region: PRK05302 326297000778 elongation factor G; Reviewed; Region: PRK00007 326297000779 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 326297000780 G1 box; other site 326297000781 putative GEF interaction site [polypeptide binding]; other site 326297000782 GTP/Mg2+ binding site [chemical binding]; other site 326297000783 Switch I region; other site 326297000784 G2 box; other site 326297000785 G3 box; other site 326297000786 Switch II region; other site 326297000787 G4 box; other site 326297000788 G5 box; other site 326297000789 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 326297000790 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 326297000791 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 326297000792 elongation factor Tu; Reviewed; Region: PRK00049 326297000793 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 326297000794 G1 box; other site 326297000795 GEF interaction site [polypeptide binding]; other site 326297000796 GTP/Mg2+ binding site [chemical binding]; other site 326297000797 Switch I region; other site 326297000798 G2 box; other site 326297000799 G3 box; other site 326297000800 Switch II region; other site 326297000801 G4 box; other site 326297000802 G5 box; other site 326297000803 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 326297000804 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 326297000805 Antibiotic Binding Site [chemical binding]; other site 326297000806 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 326297000807 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 326297000808 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 326297000809 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 326297000810 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 326297000811 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 326297000812 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 326297000813 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 326297000814 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 326297000815 putative translocon binding site; other site 326297000816 protein-rRNA interface [nucleotide binding]; other site 326297000817 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 326297000818 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 326297000819 G-X-X-G motif; other site 326297000820 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 326297000821 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 326297000822 23S rRNA interface [nucleotide binding]; other site 326297000823 5S rRNA interface [nucleotide binding]; other site 326297000824 putative antibiotic binding site [chemical binding]; other site 326297000825 L25 interface [polypeptide binding]; other site 326297000826 L27 interface [polypeptide binding]; other site 326297000827 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 326297000828 23S rRNA interface [nucleotide binding]; other site 326297000829 putative translocon interaction site; other site 326297000830 signal recognition particle (SRP54) interaction site; other site 326297000831 L23 interface [polypeptide binding]; other site 326297000832 trigger factor interaction site; other site 326297000833 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 326297000834 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 326297000835 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 326297000836 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 326297000837 RNA binding site [nucleotide binding]; other site 326297000838 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 326297000839 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 326297000840 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 326297000841 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 326297000842 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 326297000843 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 326297000844 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 326297000845 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 326297000846 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 326297000847 23S rRNA interface [nucleotide binding]; other site 326297000848 L21e interface [polypeptide binding]; other site 326297000849 5S rRNA interface [nucleotide binding]; other site 326297000850 L27 interface [polypeptide binding]; other site 326297000851 L5 interface [polypeptide binding]; other site 326297000852 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 326297000853 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 326297000854 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 326297000855 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 326297000856 23S rRNA binding site [nucleotide binding]; other site 326297000857 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 326297000858 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 326297000859 SecY translocase; Region: SecY; pfam00344 326297000860 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 326297000861 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 326297000862 30S ribosomal protein S13; Region: bact_S13; TIGR03631 326297000863 30S ribosomal protein S11; Validated; Region: PRK05309 326297000864 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 326297000865 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 326297000866 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 326297000867 RNA binding surface [nucleotide binding]; other site 326297000868 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 326297000869 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 326297000870 alphaNTD homodimer interface [polypeptide binding]; other site 326297000871 alphaNTD - beta interaction site [polypeptide binding]; other site 326297000872 alphaNTD - beta' interaction site [polypeptide binding]; other site 326297000873 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 326297000874 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 326297000875 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 326297000876 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 326297000877 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 326297000878 heme exporter protein CcmC; Region: ccmC; TIGR01191 326297000879 heme exporter protein CcmB; Region: ccmB; TIGR01190 326297000880 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 326297000881 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 326297000882 Walker A/P-loop; other site 326297000883 ATP binding site [chemical binding]; other site 326297000884 Q-loop/lid; other site 326297000885 ABC transporter signature motif; other site 326297000886 Walker B; other site 326297000887 D-loop; other site 326297000888 H-loop/switch region; other site 326297000889 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 326297000890 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 326297000891 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 326297000892 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 326297000893 TPR motif; other site 326297000894 binding surface 326297000895 cytochrome c nitrate reductase biogenesis protein NrfE; Region: cyt_nit_nrfE; TIGR03145 326297000896 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 326297000897 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 326297000898 catalytic residues [active] 326297000899 central insert; other site 326297000900 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 326297000901 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 326297000902 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 326297000903 catalytic residues [active] 326297000904 competence damage-inducible protein A; Provisional; Region: PRK00549 326297000905 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 326297000906 putative MPT binding site; other site 326297000907 Competence-damaged protein; Region: CinA; pfam02464 326297000908 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 326297000909 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 326297000910 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 326297000911 acetylornithine deacetylase; Provisional; Region: PRK05111 326297000912 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 326297000913 metal binding site [ion binding]; metal-binding site 326297000914 putative dimer interface [polypeptide binding]; other site 326297000915 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 326297000916 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 326297000917 acetylglutamate kinase; Provisional; Region: PRK00942 326297000918 substrate binding site [chemical binding]; other site 326297000919 nucleotide binding site [chemical binding]; other site 326297000920 ornithine carbamoyltransferase; Provisional; Region: PRK14805 326297000921 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 326297000922 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 326297000923 argininosuccinate synthase; Provisional; Region: PRK13820 326297000924 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 326297000925 ANP binding site [chemical binding]; other site 326297000926 Substrate Binding Site II [chemical binding]; other site 326297000927 Substrate Binding Site I [chemical binding]; other site 326297000928 argininosuccinate lyase; Provisional; Region: PRK04833 326297000929 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 326297000930 active sites [active] 326297000931 tetramer interface [polypeptide binding]; other site 326297000932 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 326297000933 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 326297000934 acyl-activating enzyme (AAE) consensus motif; other site 326297000935 putative AMP binding site [chemical binding]; other site 326297000936 putative active site [active] 326297000937 putative CoA binding site [chemical binding]; other site 326297000938 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 326297000939 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 326297000940 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 326297000941 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 326297000942 homotrimer interaction site [polypeptide binding]; other site 326297000943 putative active site [active] 326297000944 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 326297000945 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 326297000946 Zn2+ binding site [ion binding]; other site 326297000947 Mg2+ binding site [ion binding]; other site 326297000948 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 326297000949 synthetase active site [active] 326297000950 NTP binding site [chemical binding]; other site 326297000951 metal binding site [ion binding]; metal-binding site 326297000952 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 326297000953 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 326297000954 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 326297000955 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 326297000956 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 326297000957 catalytic site [active] 326297000958 G-X2-G-X-G-K; other site 326297000959 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 326297000960 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: Arch_glmU; TIGR03992 326297000961 active site 326297000962 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 326297000963 active site 326297000964 Phosphotransferase enzyme family; Region: APH; pfam01636 326297000965 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; cl17270 326297000966 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 326297000967 Major Facilitator Superfamily; Region: MFS_1; pfam07690 326297000968 Major Facilitator Superfamily; Region: MFS_1; pfam07690 326297000969 Transcriptional regulator [Transcription]; Region: LysR; COG0583 326297000970 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297000971 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 326297000972 dimerization interface [polypeptide binding]; other site 326297000973 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 326297000974 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 326297000975 active site 326297000976 metal binding site [ion binding]; metal-binding site 326297000977 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 326297000978 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 326297000979 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 326297000980 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 326297000981 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 326297000982 DNA binding residues [nucleotide binding] 326297000983 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 326297000984 ATP binding site [chemical binding]; other site 326297000985 Mg2+ binding site [ion binding]; other site 326297000986 G-X-G motif; other site 326297000987 Z1 domain; Region: Z1; pfam10593 326297000988 Domain of unknown function (DUF4420); Region: DUF4420; pfam14390 326297000989 AIPR protein; Region: AIPR; pfam10592 326297000990 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 326297000991 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 326297000992 cofactor binding site; other site 326297000993 DNA binding site [nucleotide binding] 326297000994 substrate interaction site [chemical binding]; other site 326297000995 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 326297000996 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 326297000997 additional DNA contacts [nucleotide binding]; other site 326297000998 mismatch recognition site; other site 326297000999 active site 326297001000 zinc binding site [ion binding]; other site 326297001001 DNA intercalation site [nucleotide binding]; other site 326297001002 Paraquat-inducible protein A; Region: PqiA; pfam04403 326297001003 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 326297001004 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 326297001005 dUMP phosphatase; Provisional; Region: PRK09449 326297001006 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 326297001007 motif II; other site 326297001008 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 326297001009 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 326297001010 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 326297001011 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 326297001012 carbohydrate binding site [chemical binding]; other site 326297001013 alpha-1,6-glucosidases, pullulanase-type; Region: pullul_strch; TIGR02103 326297001014 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 326297001015 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 326297001016 Ca binding site [ion binding]; other site 326297001017 active site 326297001018 catalytic site [active] 326297001019 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 326297001020 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 326297001021 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 326297001022 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 326297001023 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 326297001024 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 326297001025 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 326297001026 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 326297001027 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 326297001028 dimerization interface [polypeptide binding]; other site 326297001029 putative active cleft [active] 326297001030 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 326297001031 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 326297001032 putative substrate binding site [chemical binding]; other site 326297001033 putative ATP binding site [chemical binding]; other site 326297001034 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 326297001035 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 326297001036 putative substrate translocation pore; other site 326297001037 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 326297001038 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 326297001039 Transcriptional regulators [Transcription]; Region: PurR; COG1609 326297001040 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 326297001041 DNA binding site [nucleotide binding] 326297001042 domain linker motif; other site 326297001043 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 326297001044 dimerization interface [polypeptide binding]; other site 326297001045 ligand binding site [chemical binding]; other site 326297001046 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 326297001047 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 326297001048 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 326297001049 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 326297001050 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 326297001051 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 326297001052 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 326297001053 Glycoside hydrolase family 99, an endo-alpha-1,2-mannosidase; Region: GH99; cd11574 326297001054 ligand binding site [chemical binding]; other site 326297001055 putative catalytic site [active] 326297001056 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 326297001057 Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked glycoproteins. This enzyme is an amidase located inside lysosomes. Mutation of this gene in humans causes a genetic disorder known as aspartylglycosaminuria (AGU)...; Region: Glycosylasparaginase; cd04513 326297001058 active site 326297001059 dimer interface [polypeptide binding]; other site 326297001060 catalytic nucleophile [active] 326297001061 Endo-beta-N-acetylglucosaminidase (ENGase) hydrolyzes the N-N'-diacetylchitobiosyl core of N-glycosylproteins. The beta-1,4-glycosyl bond located between two N-acetylglucosamine residues is hydrolyzed such that N-acetylglucosamine 1 remains with...; Region: GH85_ENGase; cd06547 326297001062 putative active site [active] 326297001063 CutC family; Region: CutC; cl01218 326297001064 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 326297001065 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 326297001066 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 326297001067 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 326297001068 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 326297001069 Na binding site [ion binding]; other site 326297001070 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 326297001071 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 326297001072 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 326297001073 active site 326297001074 metal binding site [ion binding]; metal-binding site 326297001075 topology modulation protein; Reviewed; Region: PRK08118 326297001076 AAA domain; Region: AAA_17; pfam13207 326297001077 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 326297001078 Putative catalytic domain of uncharacterized hypothetical proteins closely related to Nuc, , an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar2; cd09174 326297001079 PLD-like domain; Region: PLDc_2; pfam13091 326297001080 putative active site [active] 326297001081 catalytic site [active] 326297001082 Nuclease-related domain; Region: NERD; pfam08378 326297001083 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 326297001084 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 326297001085 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 326297001086 active site 326297001087 Int/Topo IB signature motif; other site 326297001088 hypothetical protein; Provisional; Region: PRK11820 326297001089 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 326297001090 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 326297001091 ribonuclease PH; Reviewed; Region: rph; PRK00173 326297001092 Ribonuclease PH; Region: RNase_PH_bact; cd11362 326297001093 hexamer interface [polypeptide binding]; other site 326297001094 active site 326297001095 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 326297001096 active site 326297001097 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 326297001098 active site 326297001099 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 326297001100 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 326297001101 division inhibitor protein; Provisional; Region: slmA; PRK09480 326297001102 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 326297001103 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 326297001104 trimer interface [polypeptide binding]; other site 326297001105 active site 326297001106 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 326297001107 Flavoprotein; Region: Flavoprotein; pfam02441 326297001108 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 326297001109 hypothetical protein; Reviewed; Region: PRK00024 326297001110 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 326297001111 MPN+ (JAMM) motif; other site 326297001112 Zinc-binding site [ion binding]; other site 326297001113 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 326297001114 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 326297001115 N-acetylglutamate synthase; Validated; Region: PRK05279 326297001116 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 326297001117 putative feedback inhibition sensing region; other site 326297001118 putative nucleotide binding site [chemical binding]; other site 326297001119 putative substrate binding site [chemical binding]; other site 326297001120 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 326297001121 Coenzyme A binding pocket [chemical binding]; other site 326297001122 Predicted permeases [General function prediction only]; Region: RarD; COG2962 326297001123 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 326297001124 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 326297001125 ATP binding site [chemical binding]; other site 326297001126 putative Mg++ binding site [ion binding]; other site 326297001127 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 326297001128 nucleotide binding region [chemical binding]; other site 326297001129 ATP-binding site [chemical binding]; other site 326297001130 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 326297001131 HRDC domain; Region: HRDC; pfam00570 326297001132 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 326297001133 TPR motif; other site 326297001134 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297001135 metal binding site [ion binding]; metal-binding site 326297001136 active site 326297001137 I-site; other site 326297001138 2-isopropylmalate synthase; Validated; Region: PRK00915 326297001139 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 326297001140 active site 326297001141 catalytic residues [active] 326297001142 metal binding site [ion binding]; metal-binding site 326297001143 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 326297001144 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 326297001145 tartrate dehydrogenase; Region: TTC; TIGR02089 326297001146 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 326297001147 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 326297001148 substrate binding site [chemical binding]; other site 326297001149 ligand binding site [chemical binding]; other site 326297001150 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 326297001151 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 326297001152 substrate binding site [chemical binding]; other site 326297001153 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 326297001154 SnoaL-like domain; Region: SnoaL_2; pfam12680 326297001155 glycerol kinase; Provisional; Region: glpK; PRK00047 326297001156 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 326297001157 N- and C-terminal domain interface [polypeptide binding]; other site 326297001158 active site 326297001159 MgATP binding site [chemical binding]; other site 326297001160 catalytic site [active] 326297001161 metal binding site [ion binding]; metal-binding site 326297001162 glycerol binding site [chemical binding]; other site 326297001163 homotetramer interface [polypeptide binding]; other site 326297001164 homodimer interface [polypeptide binding]; other site 326297001165 FBP binding site [chemical binding]; other site 326297001166 protein IIAGlc interface [polypeptide binding]; other site 326297001167 cell division protein MraZ; Reviewed; Region: PRK00326 326297001168 MraZ protein; Region: MraZ; pfam02381 326297001169 MraZ protein; Region: MraZ; pfam02381 326297001170 MraW methylase family; Region: Methyltransf_5; pfam01795 326297001171 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 326297001172 Cell division protein FtsL; Region: FtsL; pfam04999 326297001173 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 326297001174 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 326297001175 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 326297001176 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 326297001177 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 326297001178 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 326297001179 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 326297001180 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 326297001181 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 326297001182 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 326297001183 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 326297001184 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 326297001185 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 326297001186 Mg++ binding site [ion binding]; other site 326297001187 putative catalytic motif [active] 326297001188 putative substrate binding site [chemical binding]; other site 326297001189 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 326297001190 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 326297001191 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 326297001192 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 326297001193 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 326297001194 active site 326297001195 homodimer interface [polypeptide binding]; other site 326297001196 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 326297001197 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 326297001198 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 326297001199 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 326297001200 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 326297001201 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 326297001202 Cell division protein FtsQ; Region: FtsQ; pfam03799 326297001203 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 326297001204 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 326297001205 Cell division protein FtsA; Region: FtsA; pfam14450 326297001206 cell division protein FtsZ; Validated; Region: PRK09330 326297001207 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 326297001208 nucleotide binding site [chemical binding]; other site 326297001209 SulA interaction site; other site 326297001210 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 326297001211 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 326297001212 Protein of unknown function (DUF721); Region: DUF721; cl02324 326297001213 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 326297001214 Peptidase family M23; Region: Peptidase_M23; pfam01551 326297001215 preprotein translocase subunit SecA; Reviewed; Region: PRK13107 326297001216 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 326297001217 SEC-C motif; Region: SEC-C; pfam02810 326297001218 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 326297001219 active site 326297001220 8-oxo-dGMP binding site [chemical binding]; other site 326297001221 nudix motif; other site 326297001222 metal binding site [ion binding]; metal-binding site 326297001223 Domain of unknown function (DUF329); Region: DUF329; pfam03884 326297001224 hypothetical protein; Provisional; Region: PRK05287 326297001225 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 326297001226 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 326297001227 CoA-binding site [chemical binding]; other site 326297001228 ATP-binding [chemical binding]; other site 326297001229 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 326297001230 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 326297001231 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 326297001232 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 326297001233 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 326297001234 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 326297001235 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 326297001236 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 326297001237 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 326297001238 Walker A motif; other site 326297001239 ATP binding site [chemical binding]; other site 326297001240 Walker B motif; other site 326297001241 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 326297001242 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 326297001243 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 326297001244 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 326297001245 dimerization interface [polypeptide binding]; other site 326297001246 active site 326297001247 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 326297001248 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 326297001249 amidase catalytic site [active] 326297001250 Zn binding residues [ion binding]; other site 326297001251 substrate binding site [chemical binding]; other site 326297001252 regulatory protein AmpE; Provisional; Region: PRK10987 326297001253 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 326297001254 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 326297001255 DNA-binding site [nucleotide binding]; DNA binding site 326297001256 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 326297001257 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 326297001258 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 326297001259 dimer interface [polypeptide binding]; other site 326297001260 TPP-binding site [chemical binding]; other site 326297001261 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 326297001262 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 326297001263 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 326297001264 E3 interaction surface; other site 326297001265 lipoyl attachment site [posttranslational modification]; other site 326297001266 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 326297001267 E3 interaction surface; other site 326297001268 lipoyl attachment site [posttranslational modification]; other site 326297001269 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 326297001270 E3 interaction surface; other site 326297001271 lipoyl attachment site [posttranslational modification]; other site 326297001272 e3 binding domain; Region: E3_binding; pfam02817 326297001273 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 326297001274 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 326297001275 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 326297001276 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 326297001277 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 326297001278 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 326297001279 heme pocket [chemical binding]; other site 326297001280 putative active site [active] 326297001281 PAS fold; Region: PAS_3; pfam08447 326297001282 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 326297001283 PAS domain; Region: PAS_9; pfam13426 326297001284 putative active site [active] 326297001285 heme pocket [chemical binding]; other site 326297001286 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297001287 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297001288 metal binding site [ion binding]; metal-binding site 326297001289 active site 326297001290 I-site; other site 326297001291 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 326297001292 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 326297001293 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 326297001294 active site 326297001295 nucleophile elbow; other site 326297001296 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 326297001297 Surface antigen; Region: Bac_surface_Ag; pfam01103 326297001298 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 326297001299 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 326297001300 active site 326297001301 Zn binding site [ion binding]; other site 326297001302 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 326297001303 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 326297001304 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 326297001305 active site 326297001306 motif I; other site 326297001307 motif II; other site 326297001308 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 326297001309 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 326297001310 substrate binding site [chemical binding]; other site 326297001311 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 326297001312 substrate binding site [chemical binding]; other site 326297001313 ligand binding site [chemical binding]; other site 326297001314 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 326297001315 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 326297001316 ATP binding site [chemical binding]; other site 326297001317 Mg++ binding site [ion binding]; other site 326297001318 motif III; other site 326297001319 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 326297001320 nucleotide binding region [chemical binding]; other site 326297001321 ATP-binding site [chemical binding]; other site 326297001322 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 326297001323 glutathione s-transferase; Provisional; Region: PTZ00057 326297001324 GST_N family, Class Sigma_like; composed of GSTs belonging to class Sigma and similar proteins, including GSTs from class Mu, Pi and Alpha. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of...; Region: GST_N_Sigma_like; cd03039 326297001325 GSH binding site (G-site) [chemical binding]; other site 326297001326 C-terminal domain interface [polypeptide binding]; other site 326297001327 dimer interface [polypeptide binding]; other site 326297001328 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 326297001329 N-terminal domain interface [polypeptide binding]; other site 326297001330 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 326297001331 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 326297001332 substrate binding site [chemical binding]; other site 326297001333 active site 326297001334 PAS domain; Region: PAS; smart00091 326297001335 PAS domain; Region: PAS_9; pfam13426 326297001336 putative active site [active] 326297001337 heme pocket [chemical binding]; other site 326297001338 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297001339 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297001340 metal binding site [ion binding]; metal-binding site 326297001341 active site 326297001342 I-site; other site 326297001343 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 326297001344 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 326297001345 short chain dehydrogenase; Provisional; Region: PRK06181 326297001346 NAD(P) binding site [chemical binding]; other site 326297001347 active site 326297001348 Peptidase M60-like family; Region: M60-like; pfam13402 326297001349 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 326297001350 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 326297001351 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 326297001352 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 326297001353 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 326297001354 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 326297001355 purine monophosphate binding site [chemical binding]; other site 326297001356 dimer interface [polypeptide binding]; other site 326297001357 putative catalytic residues [active] 326297001358 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 326297001359 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 326297001360 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 326297001361 DNA binding residues [nucleotide binding] 326297001362 dimer interface [polypeptide binding]; other site 326297001363 metal binding site [ion binding]; metal-binding site 326297001364 Predicted permease; Region: DUF318; cl17795 326297001365 Predicted permease; Region: DUF318; cl17795 326297001366 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 326297001367 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 326297001368 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 326297001369 LysR family transcriptional regulator; Provisional; Region: PRK14997 326297001370 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297001371 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 326297001372 putative effector binding pocket; other site 326297001373 dimerization interface [polypeptide binding]; other site 326297001374 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 326297001375 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 326297001376 HlyD family secretion protein; Region: HlyD_3; pfam13437 326297001377 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 326297001378 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 326297001379 putative substrate translocation pore; other site 326297001380 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 326297001381 Coenzyme A binding pocket [chemical binding]; other site 326297001382 Uncharacterized conserved protein [Function unknown]; Region: COG1359 326297001383 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 326297001384 Radical SAM superfamily; Region: Radical_SAM; pfam04055 326297001385 FeS/SAM binding site; other site 326297001386 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 326297001387 Mechanosensitive ion channel; Region: MS_channel; pfam00924 326297001388 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 326297001389 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 326297001390 putative active site [active] 326297001391 metal binding site [ion binding]; metal-binding site 326297001392 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 326297001393 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 326297001394 dimer interface [polypeptide binding]; other site 326297001395 active site 326297001396 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 326297001397 catalytic residues [active] 326297001398 substrate binding site [chemical binding]; other site 326297001399 Protein of unknown function (DUF465); Region: DUF465; cl01070 326297001400 uridine phosphorylase; Provisional; Region: PRK11178 326297001401 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 326297001402 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 326297001403 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 326297001404 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 326297001405 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 326297001406 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 326297001407 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 326297001408 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 326297001409 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; cl17355 326297001410 DNA binding site [nucleotide binding] 326297001411 Response regulator receiver domain; Region: Response_reg; pfam00072 326297001412 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297001413 active site 326297001414 phosphorylation site [posttranslational modification] 326297001415 intermolecular recognition site; other site 326297001416 dimerization interface [polypeptide binding]; other site 326297001417 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 326297001418 Part of AAA domain; Region: AAA_19; pfam13245 326297001419 Family description; Region: UvrD_C_2; pfam13538 326297001420 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 326297001421 UbiA prenyltransferase family; Region: UbiA; pfam01040 326297001422 TMAO reductase system periplasmic protein TorT; Region: TMAO_TorT; TIGR02955 326297001423 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 326297001424 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Deinococcus radiodurans DR2231 protein and its bacterial homologs; Region: NTP-PPase_DR2231_like; cd11530 326297001425 metal binding site [ion binding]; metal-binding site 326297001426 Pathogenicity locus; Region: Cdd1; pfam11731 326297001427 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 326297001428 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 326297001429 substrate binding pocket [chemical binding]; other site 326297001430 membrane-bound complex binding site; other site 326297001431 hinge residues; other site 326297001432 FMN reductase; Validated; Region: fre; PRK08051 326297001433 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 326297001434 FAD binding pocket [chemical binding]; other site 326297001435 FAD binding motif [chemical binding]; other site 326297001436 phosphate binding motif [ion binding]; other site 326297001437 beta-alpha-beta structure motif; other site 326297001438 NAD binding pocket [chemical binding]; other site 326297001439 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 326297001440 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 326297001441 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 326297001442 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 326297001443 active site 326297001444 Zn binding site [ion binding]; other site 326297001445 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 326297001446 FOG: PKD repeat [General function prediction only]; Region: COG3291 326297001447 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 326297001448 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 326297001449 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 326297001450 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 326297001451 DNA binding site [nucleotide binding] 326297001452 Domain of unknown function (DUF1888); Region: DUF1888; pfam08985 326297001453 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 326297001454 PAS domain; Region: PAS_9; pfam13426 326297001455 putative active site [active] 326297001456 heme pocket [chemical binding]; other site 326297001457 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297001458 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297001459 metal binding site [ion binding]; metal-binding site 326297001460 active site 326297001461 I-site; other site 326297001462 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 326297001463 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 326297001464 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 326297001465 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 326297001466 active site 326297001467 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 326297001468 catalytic core [active] 326297001469 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 326297001470 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297001471 active site 326297001472 phosphorylation site [posttranslational modification] 326297001473 intermolecular recognition site; other site 326297001474 dimerization interface [polypeptide binding]; other site 326297001475 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 326297001476 DNA binding site [nucleotide binding] 326297001477 Tetratricopeptide repeat; Region: TPR_12; pfam13424 326297001478 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 326297001479 TPR motif; other site 326297001480 binding surface 326297001481 Tetratricopeptide repeat; Region: TPR_12; pfam13424 326297001482 Tetratricopeptide repeat; Region: TPR_12; pfam13424 326297001483 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 326297001484 binding surface 326297001485 TPR motif; other site 326297001486 Tetratricopeptide repeat; Region: TPR_12; pfam13424 326297001487 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 326297001488 dimer interface [polypeptide binding]; other site 326297001489 phosphorylation site [posttranslational modification] 326297001490 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 326297001491 ATP binding site [chemical binding]; other site 326297001492 Mg2+ binding site [ion binding]; other site 326297001493 G-X-G motif; other site 326297001494 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 326297001495 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 326297001496 catalytic triad [active] 326297001497 putative active site [active] 326297001498 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 326297001499 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 326297001500 FOG: PKD repeat [General function prediction only]; Region: COG3291 326297001501 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 326297001502 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 326297001503 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 326297001504 Walker A motif; other site 326297001505 ATP binding site [chemical binding]; other site 326297001506 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 326297001507 Walker B motif; other site 326297001508 arginine finger; other site 326297001509 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 326297001510 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 326297001511 active site 326297001512 HslU subunit interaction site [polypeptide binding]; other site 326297001513 Sporulation related domain; Region: SPOR; cl10051 326297001514 Sporulation related domain; Region: SPOR; pfam05036 326297001515 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 326297001516 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 326297001517 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 326297001518 active site 326297001519 HIGH motif; other site 326297001520 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 326297001521 KMSK motif region; other site 326297001522 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 326297001523 tRNA binding surface [nucleotide binding]; other site 326297001524 anticodon binding site; other site 326297001525 primosome assembly protein PriA; Validated; Region: PRK05580 326297001526 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 326297001527 ATP binding site [chemical binding]; other site 326297001528 putative Mg++ binding site [ion binding]; other site 326297001529 helicase superfamily c-terminal domain; Region: HELICc; smart00490 326297001530 FimV N-terminal domain; Region: FimV_core; TIGR03505 326297001531 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 326297001532 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 326297001533 Malic enzyme, N-terminal domain; Region: malic; pfam00390 326297001534 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 326297001535 putative NAD(P) binding site [chemical binding]; other site 326297001536 regulatory protein CsrD; Provisional; Region: PRK11059 326297001537 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297001538 metal binding site [ion binding]; metal-binding site 326297001539 active site 326297001540 I-site; other site 326297001541 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 326297001542 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 326297001543 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 326297001544 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 326297001545 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 326297001546 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 326297001547 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 326297001548 Walker A motif; other site 326297001549 ATP binding site [chemical binding]; other site 326297001550 Walker B motif; other site 326297001551 arginine finger; other site 326297001552 TPR repeat; Region: TPR_11; pfam13414 326297001553 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 326297001554 TPR motif; other site 326297001555 binding surface 326297001556 Tetratricopeptide repeat; Region: TPR_16; pfam13432 326297001557 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 326297001558 binding surface 326297001559 TPR motif; other site 326297001560 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 326297001561 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 326297001562 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 326297001563 Walker A motif; other site 326297001564 ATP binding site [chemical binding]; other site 326297001565 Walker B motif; other site 326297001566 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 326297001567 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 326297001568 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 326297001569 pectinesterase; Region: PLN02197 326297001570 rod shape-determining protein MreB; Provisional; Region: PRK13927 326297001571 MreB and similar proteins; Region: MreB_like; cd10225 326297001572 nucleotide binding site [chemical binding]; other site 326297001573 Mg binding site [ion binding]; other site 326297001574 putative protofilament interaction site [polypeptide binding]; other site 326297001575 RodZ interaction site [polypeptide binding]; other site 326297001576 rod shape-determining protein MreC; Region: mreC; TIGR00219 326297001577 rod shape-determining protein MreC; Region: MreC; pfam04085 326297001578 rod shape-determining protein MreD; Region: MreD; cl01087 326297001579 Maf-like protein; Region: Maf; pfam02545 326297001580 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 326297001581 active site 326297001582 dimer interface [polypeptide binding]; other site 326297001583 ribonuclease G; Provisional; Region: PRK11712 326297001584 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 326297001585 homodimer interface [polypeptide binding]; other site 326297001586 oligonucleotide binding site [chemical binding]; other site 326297001587 Predicted membrane protein [Function unknown]; Region: COG3164 326297001588 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 326297001589 nitrilase; Region: PLN02798 326297001590 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 326297001591 putative active site [active] 326297001592 catalytic triad [active] 326297001593 dimer interface [polypeptide binding]; other site 326297001594 protease TldD; Provisional; Region: tldD; PRK10735 326297001595 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 326297001596 Prostaglandin dehydrogenases; Region: PGDH; cd05288 326297001597 NAD(P) binding site [chemical binding]; other site 326297001598 substrate binding site [chemical binding]; other site 326297001599 dimer interface [polypeptide binding]; other site 326297001600 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 326297001601 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 326297001602 Outer membrane efflux protein; Region: OEP; pfam02321 326297001603 Outer membrane efflux protein; Region: OEP; pfam02321 326297001604 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 326297001605 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 326297001606 HlyD family secretion protein; Region: HlyD_3; pfam13437 326297001607 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 326297001608 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 326297001609 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 326297001610 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 326297001611 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 326297001612 hypothetical protein; Provisional; Region: PRK05255 326297001613 peptidase PmbA; Provisional; Region: PRK11040 326297001614 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 326297001615 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 326297001616 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 326297001617 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 326297001618 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 326297001619 FeS/SAM binding site; other site 326297001620 Uncharacterized conserved protein [Function unknown]; Region: COG2968 326297001621 Protein of unknown function (DUF541); Region: SIMPL; cl01077 326297001622 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 326297001623 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 326297001624 Coenzyme A binding pocket [chemical binding]; other site 326297001625 Zinc-dependent metalloprotease, pappalysin_like subfamily. The pregnancy-associated plasma protein A (PAPP-A or pappalysin-1) cleaves insulin-like growth factor-binding proteins 4 and 5, thereby promoting cell growth by releasing bound growth factor; Region: ZnMc_pappalysin_like; cd04275 326297001626 active site 326297001627 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 326297001628 Ligand Binding Site [chemical binding]; other site 326297001629 Peptidase family M48; Region: Peptidase_M48; cl12018 326297001630 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 326297001631 ATP binding site [chemical binding]; other site 326297001632 active site 326297001633 substrate binding site [chemical binding]; other site 326297001634 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 326297001635 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 326297001636 Na binding site [ion binding]; other site 326297001637 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 326297001638 dimerization interface [polypeptide binding]; other site 326297001639 putative DNA binding site [nucleotide binding]; other site 326297001640 putative Zn2+ binding site [ion binding]; other site 326297001641 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 326297001642 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 326297001643 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 326297001644 Major Facilitator Superfamily; Region: MFS_1; pfam07690 326297001645 Major Facilitator Superfamily; Region: MFS_1; pfam07690 326297001646 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 326297001647 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 326297001648 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 326297001649 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297001650 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297001651 metal binding site [ion binding]; metal-binding site 326297001652 active site 326297001653 I-site; other site 326297001654 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 326297001655 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 326297001656 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 326297001657 Beta-Casp domain; Region: Beta-Casp; smart01027 326297001658 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 326297001659 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 326297001660 EamA-like transporter family; Region: EamA; pfam00892 326297001661 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 326297001662 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 326297001663 active site 326297001664 motif I; other site 326297001665 motif II; other site 326297001666 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 326297001667 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 326297001668 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 326297001669 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 326297001670 active site 326297001671 dimer interface [polypeptide binding]; other site 326297001672 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; cl15837 326297001673 Domain of unknown function (DUF386); Region: DUF386; cl01047 326297001674 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 326297001675 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 326297001676 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 326297001677 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 326297001678 active site 326297001679 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 326297001680 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 326297001681 HlyD family secretion protein; Region: HlyD_3; pfam13437 326297001682 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 326297001683 metal binding site [ion binding]; metal-binding site 326297001684 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 326297001685 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 326297001686 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 326297001687 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 326297001688 NADP binding site [chemical binding]; other site 326297001689 active site 326297001690 putative substrate binding site [chemical binding]; other site 326297001691 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 326297001692 yybP-ykoY element as predicted by Rfam (RF00080), score 45.72 326297001693 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 326297001694 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 326297001695 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 326297001696 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 326297001697 ATP binding site [chemical binding]; other site 326297001698 Mg++ binding site [ion binding]; other site 326297001699 motif III; other site 326297001700 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 326297001701 nucleotide binding region [chemical binding]; other site 326297001702 ATP-binding site [chemical binding]; other site 326297001703 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 326297001704 putative RNA binding site [nucleotide binding]; other site 326297001705 M28 Zn-Peptidases; Region: M28_like_2; cd05662 326297001706 Peptidase family M28; Region: Peptidase_M28; pfam04389 326297001707 metal binding site [ion binding]; metal-binding site 326297001708 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 326297001709 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 326297001710 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 326297001711 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 326297001712 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 326297001713 Major Facilitator Superfamily; Region: MFS_1; pfam07690 326297001714 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 326297001715 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 326297001716 dimer interface [polypeptide binding]; other site 326297001717 ssDNA binding site [nucleotide binding]; other site 326297001718 tetramer (dimer of dimers) interface [polypeptide binding]; other site 326297001719 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 326297001720 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 326297001721 NAD(P) binding site [chemical binding]; other site 326297001722 active site 326297001723 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 326297001724 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 326297001725 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 326297001726 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 326297001727 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 326297001728 N-terminal plug; other site 326297001729 ligand-binding site [chemical binding]; other site 326297001730 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 326297001731 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297001732 active site 326297001733 phosphorylation site [posttranslational modification] 326297001734 intermolecular recognition site; other site 326297001735 dimerization interface [polypeptide binding]; other site 326297001736 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 326297001737 DNA binding residues [nucleotide binding] 326297001738 dimerization interface [polypeptide binding]; other site 326297001739 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 326297001740 Na binding site [ion binding]; other site 326297001741 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 326297001742 PAS fold; Region: PAS_7; pfam12860 326297001743 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 326297001744 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 326297001745 dimer interface [polypeptide binding]; other site 326297001746 phosphorylation site [posttranslational modification] 326297001747 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 326297001748 ATP binding site [chemical binding]; other site 326297001749 Mg2+ binding site [ion binding]; other site 326297001750 G-X-G motif; other site 326297001751 Response regulator receiver domain; Region: Response_reg; pfam00072 326297001752 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297001753 active site 326297001754 phosphorylation site [posttranslational modification] 326297001755 intermolecular recognition site; other site 326297001756 dimerization interface [polypeptide binding]; other site 326297001757 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 326297001758 Major Facilitator Superfamily; Region: MFS_1; pfam07690 326297001759 putative substrate translocation pore; other site 326297001760 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; cd00312 326297001761 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 326297001762 substrate binding pocket [chemical binding]; other site 326297001763 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 326297001764 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 326297001765 substrate binding pocket [chemical binding]; other site 326297001766 membrane-bound complex binding site; other site 326297001767 hinge residues; other site 326297001768 Cytochrome c [Energy production and conversion]; Region: COG3258 326297001769 Cytochrome c; Region: Cytochrom_C; pfam00034 326297001770 Cytochrome c; Region: Cytochrom_C; cl11414 326297001771 Cytochrome c; Region: Cytochrom_C; cl11414 326297001772 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297001773 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297001774 metal binding site [ion binding]; metal-binding site 326297001775 active site 326297001776 I-site; other site 326297001777 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 326297001778 putative deacylase active site [active] 326297001779 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 326297001780 PAS domain; Region: PAS_9; pfam13426 326297001781 putative active site [active] 326297001782 heme pocket [chemical binding]; other site 326297001783 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 326297001784 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 326297001785 dimer interface [polypeptide binding]; other site 326297001786 putative CheW interface [polypeptide binding]; other site 326297001787 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 326297001788 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 326297001789 NAD(P) binding site [chemical binding]; other site 326297001790 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 326297001791 active site 326297001792 catalytic residues [active] 326297001793 galactokinase; Provisional; Region: PRK05101 326297001794 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 326297001795 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 326297001796 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 326297001797 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 326297001798 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 326297001799 TrkA-N domain; Region: TrkA_N; pfam02254 326297001800 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 326297001801 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 326297001802 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 326297001803 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 326297001804 DsbD alpha interface [polypeptide binding]; other site 326297001805 catalytic residues [active] 326297001806 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 326297001807 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 326297001808 Catalytic domain of Protein Kinases; Region: PKc; cd00180 326297001809 active site 326297001810 ATP binding site [chemical binding]; other site 326297001811 substrate binding site [chemical binding]; other site 326297001812 activation loop (A-loop); other site 326297001813 thiopurine S-methyltransferase; Reviewed; Region: PRK13255 326297001814 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 326297001815 eyelet of channel; other site 326297001816 trimer interface [polypeptide binding]; other site 326297001817 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 326297001818 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 326297001819 eyelet of channel; other site 326297001820 trimer interface [polypeptide binding]; other site 326297001821 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 326297001822 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 326297001823 putative ATP binding site [chemical binding]; other site 326297001824 putative substrate interface [chemical binding]; other site 326297001825 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 326297001826 dimer interface [polypeptide binding]; other site 326297001827 phosphorylation site [posttranslational modification] 326297001828 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 326297001829 ATP binding site [chemical binding]; other site 326297001830 Mg2+ binding site [ion binding]; other site 326297001831 G-X-G motif; other site 326297001832 Superinfection exclusion protein B; Region: SieB; pfam14163 326297001833 Protein of unknown function (DUF3149); Region: DUF3149; pfam11346 326297001834 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 326297001835 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 326297001836 dimer interface [polypeptide binding]; other site 326297001837 putative CheW interface [polypeptide binding]; other site 326297001838 Hemerythrin; Region: Hemerythrin; cd12107 326297001839 Fe binding site [ion binding]; other site 326297001840 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 326297001841 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 326297001842 substrate binding pocket [chemical binding]; other site 326297001843 membrane-bound complex binding site; other site 326297001844 hinge residues; other site 326297001845 Cache domain; Region: Cache_1; pfam02743 326297001846 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 326297001847 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 326297001848 dimer interface [polypeptide binding]; other site 326297001849 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 326297001850 putative CheW interface [polypeptide binding]; other site 326297001851 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; cl17355 326297001852 DNA binding site [nucleotide binding] 326297001853 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 326297001854 Peptidase S8 family domain, uncharacterized subfamily 3; Region: Peptidases_S8_3; cd04852 326297001855 active site 326297001856 catalytic triad [active] 326297001857 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 326297001858 PA/protease or protease-like domain interface [polypeptide binding]; other site 326297001859 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 326297001860 catalytic residues [active] 326297001861 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 326297001862 active site 326297001863 catalytic residues [active] 326297001864 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 326297001865 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 326297001866 Ca2+ binding site [ion binding]; other site 326297001867 dimerization interface [polypeptide binding]; other site 326297001868 N-acylglucosamine 2-epimerase (GlcNAc 2-epimerase); Region: GlcNAc_2-epim; pfam07221 326297001869 putative active cleft [active] 326297001870 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 326297001871 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 326297001872 putative substrate binding site [chemical binding]; other site 326297001873 putative ATP binding site [chemical binding]; other site 326297001874 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 326297001875 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 326297001876 putative substrate translocation pore; other site 326297001877 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 326297001878 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 326297001879 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 326297001880 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 326297001881 Transcriptional regulators [Transcription]; Region: PurR; COG1609 326297001882 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 326297001883 DNA binding site [nucleotide binding] 326297001884 domain linker motif; other site 326297001885 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 326297001886 putative dimerization interface [polypeptide binding]; other site 326297001887 putative ligand binding site [chemical binding]; other site 326297001888 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 326297001889 Peptidase family M50; Region: Peptidase_M50; pfam02163 326297001890 active site 326297001891 putative substrate binding region [chemical binding]; other site 326297001892 protein structure with unknown function; Region: DUF4144; pfam13642 326297001893 Protein of unknown function (DUF342); Region: DUF342; pfam03961 326297001894 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 326297001895 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 326297001896 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 326297001897 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 326297001898 S-adenosylmethionine binding site [chemical binding]; other site 326297001899 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297001900 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297001901 metal binding site [ion binding]; metal-binding site 326297001902 active site 326297001903 I-site; other site 326297001904 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 326297001905 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 326297001906 dimer interface [polypeptide binding]; other site 326297001907 Alkaline phosphatase homologues; Region: alkPPc; smart00098 326297001908 active site 326297001909 glutathione synthetase; Provisional; Region: PRK05246 326297001910 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 326297001911 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 326297001912 RNA methyltransferase, RsmE family; Region: TIGR00046 326297001913 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 326297001914 DNA-specific endonuclease I; Provisional; Region: PRK15137 326297001915 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 326297001916 SprT-like family; Region: SprT-like; pfam10263 326297001917 SprT homologues; Region: SprT; cl01182 326297001918 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 326297001919 putative substrate binding pocket [chemical binding]; other site 326297001920 AC domain interface; other site 326297001921 catalytic triad [active] 326297001922 AB domain interface; other site 326297001923 interchain disulfide; other site 326297001924 LysR family transcriptional regulator; Provisional; Region: PRK14997 326297001925 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297001926 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 326297001927 putative effector binding pocket; other site 326297001928 dimerization interface [polypeptide binding]; other site 326297001929 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 326297001930 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 326297001931 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 326297001932 ATP-grasp domain; Region: ATP-grasp_4; cl17255 326297001933 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 326297001934 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 326297001935 carboxyltransferase (CT) interaction site; other site 326297001936 biotinylation site [posttranslational modification]; other site 326297001937 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 326297001938 dimerization interface [polypeptide binding]; other site 326297001939 PAS domain; Region: PAS_8; pfam13188 326297001940 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297001941 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297001942 metal binding site [ion binding]; metal-binding site 326297001943 active site 326297001944 I-site; other site 326297001945 elongation factor G; Reviewed; Region: PRK00007 326297001946 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 326297001947 G1 box; other site 326297001948 putative GEF interaction site [polypeptide binding]; other site 326297001949 GTP/Mg2+ binding site [chemical binding]; other site 326297001950 Switch I region; other site 326297001951 G2 box; other site 326297001952 G3 box; other site 326297001953 Switch II region; other site 326297001954 G4 box; other site 326297001955 G5 box; other site 326297001956 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 326297001957 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 326297001958 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 326297001959 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 326297001960 Ligand Binding Site [chemical binding]; other site 326297001961 Transcriptional regulator [Transcription]; Region: LysR; COG0583 326297001962 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297001963 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 326297001964 putative dimerization interface [polypeptide binding]; other site 326297001965 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 326297001966 FMN-binding domain; Region: FMN_bind; pfam04205 326297001967 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 326297001968 Gram-negative porin; Region: Porin_4; pfam13609 326297001969 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 326297001970 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 326297001971 N-terminal plug; other site 326297001972 ligand-binding site [chemical binding]; other site 326297001973 Protein of unknown function (DUF3581); Region: DUF3581; pfam12119 326297001974 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 326297001975 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 326297001976 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 326297001977 Transposase IS200 like; Region: Y1_Tnp; pfam01797 326297001978 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 326297001979 dimer interface [polypeptide binding]; other site 326297001980 substrate binding site [chemical binding]; other site 326297001981 metal binding sites [ion binding]; metal-binding site 326297001982 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 326297001983 AMP binding site [chemical binding]; other site 326297001984 metal binding site [ion binding]; metal-binding site 326297001985 active site 326297001986 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 326297001987 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 326297001988 two-component response regulator; Provisional; Region: PRK11173 326297001989 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297001990 active site 326297001991 phosphorylation site [posttranslational modification] 326297001992 intermolecular recognition site; other site 326297001993 dimerization interface [polypeptide binding]; other site 326297001994 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 326297001995 DNA binding site [nucleotide binding] 326297001996 Protein of unknown function (DUF3293); Region: DUF3293; pfam11697 326297001997 aspartate kinase III; Validated; Region: PRK09084 326297001998 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 326297001999 nucleotide binding site [chemical binding]; other site 326297002000 substrate binding site [chemical binding]; other site 326297002001 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC-like_1; cd04912 326297002002 dimer interface [polypeptide binding]; other site 326297002003 allosteric regulatory binding pocket; other site 326297002004 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 326297002005 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 326297002006 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 326297002007 active site 326297002008 Zn binding site [ion binding]; other site 326297002009 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 326297002010 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 326297002011 putative DNA binding site [nucleotide binding]; other site 326297002012 putative Zn2+ binding site [ion binding]; other site 326297002013 AsnC family; Region: AsnC_trans_reg; pfam01037 326297002014 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 326297002015 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 326297002016 active site 326297002017 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 326297002018 DNA binding site [nucleotide binding] 326297002019 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 326297002020 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 326297002021 tellurite resistance protein TehB; Provisional; Region: PRK11207 326297002022 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 326297002023 S-adenosylmethionine binding site [chemical binding]; other site 326297002024 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 326297002025 heme-binding residues [chemical binding]; other site 326297002026 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 326297002027 L-aspartate oxidase; Provisional; Region: PRK06175 326297002028 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 326297002029 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 326297002030 putative ligand binding site [chemical binding]; other site 326297002031 putative NAD binding site [chemical binding]; other site 326297002032 catalytic site [active] 326297002033 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 326297002034 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 326297002035 Mechanosensitive ion channel; Region: MS_channel; pfam00924 326297002036 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 326297002037 multifunctional aminopeptidase A; Provisional; Region: PRK00913 326297002038 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 326297002039 interface (dimer of trimers) [polypeptide binding]; other site 326297002040 Substrate-binding/catalytic site; other site 326297002041 Zn-binding sites [ion binding]; other site 326297002042 peroxiredoxin; Region: AhpC; TIGR03137 326297002043 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 326297002044 dimer interface [polypeptide binding]; other site 326297002045 decamer (pentamer of dimers) interface [polypeptide binding]; other site 326297002046 catalytic triad [active] 326297002047 peroxidatic and resolving cysteines [active] 326297002048 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 326297002049 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 326297002050 catalytic residue [active] 326297002051 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 326297002052 catalytic residues [active] 326297002053 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 326297002054 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 326297002055 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297002056 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297002057 metal binding site [ion binding]; metal-binding site 326297002058 active site 326297002059 I-site; other site 326297002060 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 326297002061 PBP superfamily domain; Region: PBP_like_2; cl17296 326297002062 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 326297002063 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 326297002064 dimer interface [polypeptide binding]; other site 326297002065 putative CheW interface [polypeptide binding]; other site 326297002066 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 326297002067 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 326297002068 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 326297002069 ligand binding site [chemical binding]; other site 326297002070 Transcriptional regulators [Transcription]; Region: MarR; COG1846 326297002071 MarR family; Region: MarR; pfam01047 326297002072 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 326297002073 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 326297002074 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 326297002075 S-adenosylmethionine binding site [chemical binding]; other site 326297002076 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 326297002077 dimer interface [polypeptide binding]; other site 326297002078 phosphorylation site [posttranslational modification] 326297002079 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 326297002080 ATP binding site [chemical binding]; other site 326297002081 Mg2+ binding site [ion binding]; other site 326297002082 G-X-G motif; other site 326297002083 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 326297002084 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297002085 active site 326297002086 phosphorylation site [posttranslational modification] 326297002087 intermolecular recognition site; other site 326297002088 dimerization interface [polypeptide binding]; other site 326297002089 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 326297002090 DNA binding site [nucleotide binding] 326297002091 Protein of unknown function (DUF3019); Region: DUF3019; pfam11456 326297002092 MltA-interacting protein MipA; Region: MipA; cl01504 326297002093 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 326297002094 Peptidase S8 family domain, uncharacterized subfamily 3; Region: Peptidases_S8_3; cd04852 326297002095 active site 326297002096 catalytic triad [active] 326297002097 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 326297002098 PA/protease or protease-like domain interface [polypeptide binding]; other site 326297002099 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 326297002100 catalytic residues [active] 326297002101 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 326297002102 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 326297002103 Chromate transporter; Region: Chromate_transp; pfam02417 326297002104 uncharacterized proteobacterial lipoprotein; Region: lp_; TIGR02722 326297002105 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 326297002106 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 326297002107 active site 326297002108 catalytic residues [active] 326297002109 metal binding site [ion binding]; metal-binding site 326297002110 SlyX; Region: SlyX; pfam04102 326297002111 FOG: WD40 repeat [General function prediction only]; Region: COG2319 326297002112 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 326297002113 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 326297002114 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 326297002115 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 326297002116 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 326297002117 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 326297002118 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 326297002119 dimer interface [polypeptide binding]; other site 326297002120 putative CheW interface [polypeptide binding]; other site 326297002121 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 326297002122 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 326297002123 Cl binding site [ion binding]; other site 326297002124 oligomer interface [polypeptide binding]; other site 326297002125 Uncharacterized protein family (UPF0231); Region: UPF0231; pfam06062 326297002126 transcriptional regulator NarL; Provisional; Region: PRK10651 326297002127 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297002128 active site 326297002129 phosphorylation site [posttranslational modification] 326297002130 intermolecular recognition site; other site 326297002131 dimerization interface [polypeptide binding]; other site 326297002132 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 326297002133 DNA binding residues [nucleotide binding] 326297002134 dimerization interface [polypeptide binding]; other site 326297002135 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 326297002136 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 326297002137 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 326297002138 dimerization interface [polypeptide binding]; other site 326297002139 Histidine kinase; Region: HisKA_3; pfam07730 326297002140 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 326297002141 ATP binding site [chemical binding]; other site 326297002142 Mg2+ binding site [ion binding]; other site 326297002143 G-X-G motif; other site 326297002144 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 326297002145 Isochorismatase family; Region: Isochorismatase; pfam00857 326297002146 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 326297002147 catalytic triad [active] 326297002148 dimer interface [polypeptide binding]; other site 326297002149 conserved cis-peptide bond; other site 326297002150 Nitrogen regulatory protein P-II; Region: P-II; cl00412 326297002151 Nitrogen regulatory protein P-II; Region: P-II; smart00938 326297002152 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 326297002153 Tetratricopeptide repeat; Region: TPR_12; pfam13424 326297002154 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 326297002155 binding surface 326297002156 TPR motif; other site 326297002157 TPR repeat; Region: TPR_11; pfam13414 326297002158 TPR repeat; Region: TPR_11; pfam13414 326297002159 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 326297002160 binding surface 326297002161 TPR motif; other site 326297002162 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 326297002163 PAS domain; Region: PAS_9; pfam13426 326297002164 putative active site [active] 326297002165 heme pocket [chemical binding]; other site 326297002166 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 326297002167 PAS domain; Region: PAS_9; pfam13426 326297002168 putative active site [active] 326297002169 heme pocket [chemical binding]; other site 326297002170 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 326297002171 dimer interface [polypeptide binding]; other site 326297002172 putative CheW interface [polypeptide binding]; other site 326297002173 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 326297002174 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 326297002175 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 326297002176 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 326297002177 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 326297002178 Walker A/P-loop; other site 326297002179 ATP binding site [chemical binding]; other site 326297002180 Q-loop/lid; other site 326297002181 ABC transporter signature motif; other site 326297002182 Walker B; other site 326297002183 D-loop; other site 326297002184 H-loop/switch region; other site 326297002185 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 326297002186 ferredoxin-NADP reductase; Provisional; Region: PRK10926 326297002187 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 326297002188 FAD binding pocket [chemical binding]; other site 326297002189 FAD binding motif [chemical binding]; other site 326297002190 phosphate binding motif [ion binding]; other site 326297002191 beta-alpha-beta structure motif; other site 326297002192 NAD binding pocket [chemical binding]; other site 326297002193 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 326297002194 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 326297002195 putative C-terminal domain interface [polypeptide binding]; other site 326297002196 putative GSH binding site (G-site) [chemical binding]; other site 326297002197 putative dimer interface [polypeptide binding]; other site 326297002198 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 326297002199 N-terminal domain interface [polypeptide binding]; other site 326297002200 dimer interface [polypeptide binding]; other site 326297002201 substrate binding pocket (H-site) [chemical binding]; other site 326297002202 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 326297002203 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 326297002204 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 326297002205 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 326297002206 dimer interface [polypeptide binding]; other site 326297002207 conserved gate region; other site 326297002208 putative PBP binding loops; other site 326297002209 ABC-ATPase subunit interface; other site 326297002210 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 326297002211 dimer interface [polypeptide binding]; other site 326297002212 conserved gate region; other site 326297002213 putative PBP binding loops; other site 326297002214 ABC-ATPase subunit interface; other site 326297002215 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 326297002216 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 326297002217 Walker A/P-loop; other site 326297002218 ATP binding site [chemical binding]; other site 326297002219 Q-loop/lid; other site 326297002220 ABC transporter signature motif; other site 326297002221 Walker B; other site 326297002222 D-loop; other site 326297002223 H-loop/switch region; other site 326297002224 TOBE domain; Region: TOBE_2; pfam08402 326297002225 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 326297002226 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 326297002227 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 326297002228 arginine repressor; Provisional; Region: PRK05066 326297002229 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 326297002230 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 326297002231 malate dehydrogenase; Provisional; Region: PRK05086 326297002232 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 326297002233 NAD binding site [chemical binding]; other site 326297002234 dimerization interface [polypeptide binding]; other site 326297002235 Substrate binding site [chemical binding]; other site 326297002236 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 326297002237 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 326297002238 HlyD family secretion protein; Region: HlyD_3; pfam13437 326297002239 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 326297002240 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 326297002241 HlyD family secretion protein; Region: HlyD_3; pfam13437 326297002242 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 326297002243 Cupin domain; Region: Cupin_2; pfam07883 326297002244 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 326297002245 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 326297002246 Peptidase family U32; Region: Peptidase_U32; pfam01136 326297002247 Collagenase; Region: DUF3656; pfam12392 326297002248 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 326297002249 pentamer interface [polypeptide binding]; other site 326297002250 dodecaamer interface [polypeptide binding]; other site 326297002251 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 326297002252 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 326297002253 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 326297002254 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 326297002255 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 326297002256 non-specific DNA binding site [nucleotide binding]; other site 326297002257 salt bridge; other site 326297002258 sequence-specific DNA binding site [nucleotide binding]; other site 326297002259 Domain of unknown function (DUF955); Region: DUF955; cl01076 326297002260 Protein of unknown function (DUF3612); Region: DUF3612; pfam12268 326297002261 malate synthase; Provisional; Region: PRK08951 326297002262 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 326297002263 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 326297002264 putative C-terminal domain interface [polypeptide binding]; other site 326297002265 putative GSH binding site (G-site) [chemical binding]; other site 326297002266 putative dimer interface [polypeptide binding]; other site 326297002267 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 326297002268 putative substrate binding pocket (H-site) [chemical binding]; other site 326297002269 putative N-terminal domain interface [polypeptide binding]; other site 326297002270 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 326297002271 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 326297002272 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 326297002273 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 326297002274 active site 326297002275 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 326297002276 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 326297002277 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 326297002278 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 326297002279 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 326297002280 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 326297002281 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 326297002282 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 326297002283 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 326297002284 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 326297002285 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 326297002286 active site 326297002287 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 326297002288 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 326297002289 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 326297002290 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 326297002291 Protein of unknown function (DUF418); Region: DUF418; cl12135 326297002292 Protein of unknown function (DUF418); Region: DUF418; pfam04235 326297002293 Domain of unknown function (DUF897); Region: DUF897; pfam05982 326297002294 Transcriptional regulator [Transcription]; Region: LysR; COG0583 326297002295 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297002296 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 326297002297 dimerization interface [polypeptide binding]; other site 326297002298 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 326297002299 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 326297002300 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 326297002301 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 326297002302 ligand binding site [chemical binding]; other site 326297002303 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 326297002304 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 326297002305 ligand binding site [chemical binding]; other site 326297002306 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 326297002307 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 326297002308 DNA binding residues [nucleotide binding] 326297002309 dimerization interface [polypeptide binding]; other site 326297002310 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 326297002311 Class III signal peptide; Region: Class_IIIsignal; pfam04021 326297002312 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 326297002313 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 326297002314 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 326297002315 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 326297002316 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 326297002317 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 326297002318 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 326297002319 phosphopeptide binding site; other site 326297002320 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 326297002321 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 326297002322 ATP binding site [chemical binding]; other site 326297002323 Walker A motif; other site 326297002324 hexamer interface [polypeptide binding]; other site 326297002325 Walker B motif; other site 326297002326 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 326297002327 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 326297002328 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 326297002329 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 326297002330 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 326297002331 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 326297002332 binding surface 326297002333 Tetratricopeptide repeat; Region: TPR_16; pfam13432 326297002334 TPR motif; other site 326297002335 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 326297002336 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 326297002337 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 326297002338 universal stress protein UspE; Provisional; Region: PRK11175 326297002339 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 326297002340 Ligand Binding Site [chemical binding]; other site 326297002341 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 326297002342 Ligand Binding Site [chemical binding]; other site 326297002343 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 326297002344 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 326297002345 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 326297002346 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 326297002347 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 326297002348 putative active site [active] 326297002349 Zn binding site [ion binding]; other site 326297002350 L,D-transpeptidase; Provisional; Region: PRK10190 326297002351 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 326297002352 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 326297002353 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 326297002354 GAF domain; Region: GAF; pfam01590 326297002355 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 326297002356 Walker A motif; other site 326297002357 ATP binding site [chemical binding]; other site 326297002358 Walker B motif; other site 326297002359 arginine finger; other site 326297002360 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 326297002361 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 326297002362 potassium/proton antiporter; Reviewed; Region: PRK05326 326297002363 TrkA-C domain; Region: TrkA_C; pfam02080 326297002364 Transporter associated domain; Region: CorC_HlyC; smart01091 326297002365 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 326297002366 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 326297002367 putative acyl-acceptor binding pocket; other site 326297002368 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 326297002369 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 326297002370 putative ribose interaction site [chemical binding]; other site 326297002371 putative ADP binding site [chemical binding]; other site 326297002372 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 326297002373 active site 326297002374 nucleotide binding site [chemical binding]; other site 326297002375 HIGH motif; other site 326297002376 KMSKS motif; other site 326297002377 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 326297002378 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 326297002379 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 326297002380 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 326297002381 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 326297002382 thioredoxin 2; Provisional; Region: PRK10996 326297002383 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 326297002384 catalytic residues [active] 326297002385 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 326297002386 Transglycosylase; Region: Transgly; cl17702 326297002387 Protein of unknown function (DUF796); Region: DUF796; pfam05638 326297002388 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 326297002389 Peptidase S8 family domain, uncharacterized subfamily 3; Region: Peptidases_S8_3; cd04852 326297002390 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 326297002391 active site 326297002392 catalytic triad [active] 326297002393 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 326297002394 PA/protease or protease-like domain interface [polypeptide binding]; other site 326297002395 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 326297002396 catalytic residues [active] 326297002397 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 326297002398 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 326297002399 dimer interface [polypeptide binding]; other site 326297002400 active site 326297002401 heme binding site [chemical binding]; other site 326297002402 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 326297002403 EamA-like transporter family; Region: EamA; pfam00892 326297002404 CHASE domain; Region: CHASE; pfam03924 326297002405 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 326297002406 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 326297002407 putative active site [active] 326297002408 heme pocket [chemical binding]; other site 326297002409 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 326297002410 dimer interface [polypeptide binding]; other site 326297002411 phosphorylation site [posttranslational modification] 326297002412 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 326297002413 ATP binding site [chemical binding]; other site 326297002414 Mg2+ binding site [ion binding]; other site 326297002415 G-X-G motif; other site 326297002416 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 326297002417 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297002418 active site 326297002419 phosphorylation site [posttranslational modification] 326297002420 intermolecular recognition site; other site 326297002421 dimerization interface [polypeptide binding]; other site 326297002422 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 326297002423 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297002424 active site 326297002425 phosphorylation site [posttranslational modification] 326297002426 intermolecular recognition site; other site 326297002427 dimerization interface [polypeptide binding]; other site 326297002428 Response regulator receiver domain; Region: Response_reg; pfam00072 326297002429 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297002430 active site 326297002431 phosphorylation site [posttranslational modification] 326297002432 intermolecular recognition site; other site 326297002433 dimerization interface [polypeptide binding]; other site 326297002434 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297002435 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297002436 metal binding site [ion binding]; metal-binding site 326297002437 active site 326297002438 I-site; other site 326297002439 Protein of unknown function (DUF2999); Region: DUF2999; pfam11212 326297002440 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 326297002441 putative heme binding pocket [chemical binding]; other site 326297002442 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 326297002443 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 326297002444 HflX GTPase family; Region: HflX; cd01878 326297002445 G1 box; other site 326297002446 GTP/Mg2+ binding site [chemical binding]; other site 326297002447 Switch I region; other site 326297002448 G2 box; other site 326297002449 G3 box; other site 326297002450 Switch II region; other site 326297002451 G4 box; other site 326297002452 G5 box; other site 326297002453 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 326297002454 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 326297002455 ATP binding site [chemical binding]; other site 326297002456 Mg++ binding site [ion binding]; other site 326297002457 motif III; other site 326297002458 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 326297002459 nucleotide binding region [chemical binding]; other site 326297002460 ATP-binding site [chemical binding]; other site 326297002461 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 326297002462 putative RNA binding site [nucleotide binding]; other site 326297002463 GSCFA family; Region: GSCFA; pfam08885 326297002464 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 326297002465 high affinity sulphate transporter 1; Region: sulP; TIGR00815 326297002466 Sulfate transporter family; Region: Sulfate_transp; pfam00916 326297002467 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 326297002468 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 326297002469 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 326297002470 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 326297002471 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 326297002472 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 326297002473 substrate binding pocket [chemical binding]; other site 326297002474 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 326297002475 B12 binding site [chemical binding]; other site 326297002476 cobalt ligand [ion binding]; other site 326297002477 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 326297002478 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 326297002479 catalytic core [active] 326297002480 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 326297002481 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 326297002482 Walker A/P-loop; other site 326297002483 ATP binding site [chemical binding]; other site 326297002484 Q-loop/lid; other site 326297002485 ABC transporter signature motif; other site 326297002486 Walker B; other site 326297002487 D-loop; other site 326297002488 H-loop/switch region; other site 326297002489 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 326297002490 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 326297002491 ABC-ATPase subunit interface; other site 326297002492 dimer interface [polypeptide binding]; other site 326297002493 putative PBP binding regions; other site 326297002494 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 326297002495 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 326297002496 putative dimer interface [polypeptide binding]; other site 326297002497 active site pocket [active] 326297002498 putative cataytic base [active] 326297002499 cobalamin synthase; Reviewed; Region: cobS; PRK00235 326297002500 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 326297002501 homotrimer interface [polypeptide binding]; other site 326297002502 Walker A motif; other site 326297002503 GTP binding site [chemical binding]; other site 326297002504 Walker B motif; other site 326297002505 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 326297002506 cobyric acid synthase; Provisional; Region: PRK00784 326297002507 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 326297002508 catalytic triad [active] 326297002509 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 326297002510 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 326297002511 homodimer interface [polypeptide binding]; other site 326297002512 Walker A motif; other site 326297002513 ATP binding site [chemical binding]; other site 326297002514 hydroxycobalamin binding site [chemical binding]; other site 326297002515 Walker B motif; other site 326297002516 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 326297002517 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 326297002518 dimer interface [polypeptide binding]; other site 326297002519 putative CheW interface [polypeptide binding]; other site 326297002520 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 326297002521 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 326297002522 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 326297002523 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 326297002524 aromatic acid decarboxylase; Validated; Region: PRK05920 326297002525 Flavoprotein; Region: Flavoprotein; pfam02441 326297002526 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 326297002527 active site 326297002528 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 326297002529 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 326297002530 Walker A/P-loop; other site 326297002531 ATP binding site [chemical binding]; other site 326297002532 Q-loop/lid; other site 326297002533 ABC transporter signature motif; other site 326297002534 Walker B; other site 326297002535 D-loop; other site 326297002536 H-loop/switch region; other site 326297002537 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 326297002538 inner membrane transport permease; Provisional; Region: PRK15066 326297002539 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 326297002540 pantoate--beta-alanine ligase; Region: panC; TIGR00018 326297002541 Pantoate-beta-alanine ligase; Region: PanC; cd00560 326297002542 active site 326297002543 ATP-binding site [chemical binding]; other site 326297002544 pantoate-binding site; other site 326297002545 HXXH motif; other site 326297002546 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 326297002547 oligomerization interface [polypeptide binding]; other site 326297002548 active site 326297002549 metal binding site [ion binding]; metal-binding site 326297002550 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 326297002551 catalytic center binding site [active] 326297002552 ATP binding site [chemical binding]; other site 326297002553 poly(A) polymerase; Region: pcnB; TIGR01942 326297002554 Poly A polymerase head domain; Region: PolyA_pol; pfam01743 326297002555 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 326297002556 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 326297002557 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 326297002558 active site 326297002559 HIGH motif; other site 326297002560 nucleotide binding site [chemical binding]; other site 326297002561 active site 326297002562 KMSKS motif; other site 326297002563 RNA polymerase-binding transcription factor; Provisional; Region: dksA; PRK10778 326297002564 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 326297002565 aminopeptidase B; Provisional; Region: PRK05015 326297002566 Peptidase; Region: DUF3663; pfam12404 326297002567 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 326297002568 interface (dimer of trimers) [polypeptide binding]; other site 326297002569 Substrate-binding/catalytic site; other site 326297002570 Zn-binding sites [ion binding]; other site 326297002571 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297002572 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297002573 metal binding site [ion binding]; metal-binding site 326297002574 active site 326297002575 I-site; other site 326297002576 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 326297002577 active site 326297002578 SAM binding site [chemical binding]; other site 326297002579 homodimer interface [polypeptide binding]; other site 326297002580 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 326297002581 Pepsin-like aspartic proteases, bilobal enzymes that cleave bonds in peptides at acidic pH; Region: pepsin_like; cd05471 326297002582 inhibitor binding site; inhibition site 326297002583 catalytic motif [active] 326297002584 catalytic residue [active] 326297002585 Active site flap [active] 326297002586 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 326297002587 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 326297002588 sequence-specific DNA binding site [nucleotide binding]; other site 326297002589 salt bridge; other site 326297002590 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 326297002591 Aspartase; Region: Aspartase; cd01357 326297002592 active sites [active] 326297002593 tetramer interface [polypeptide binding]; other site 326297002594 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 326297002595 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 326297002596 HIGH motif; other site 326297002597 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 326297002598 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 326297002599 active site 326297002600 KMSKS motif; other site 326297002601 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 326297002602 tRNA binding surface [nucleotide binding]; other site 326297002603 anticodon binding site; other site 326297002604 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 326297002605 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 326297002606 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 326297002607 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 326297002608 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 326297002609 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 326297002610 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 326297002611 Peptidase C26; Region: Peptidase_C26; pfam07722 326297002612 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 326297002613 catalytic triad [active] 326297002614 multifunctional aminopeptidase A; Provisional; Region: PRK00913 326297002615 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 326297002616 interface (dimer of trimers) [polypeptide binding]; other site 326297002617 Substrate-binding/catalytic site; other site 326297002618 Zn-binding sites [ion binding]; other site 326297002619 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 326297002620 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 326297002621 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 326297002622 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 326297002623 RDD family; Region: RDD; pfam06271 326297002624 Protein of unknown function (DUF2960); Region: DUF2960; pfam11173 326297002625 Protein of unknown function, DUF486; Region: DUF486; pfam04342 326297002626 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 326297002627 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 326297002628 active site 326297002629 Zn binding site [ion binding]; other site 326297002630 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 326297002631 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 326297002632 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 326297002633 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 326297002634 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 326297002635 membrane-bound complex binding site; other site 326297002636 hinge residues; other site 326297002637 Protein of unknown function (DUF2913); Region: DUF2913; pfam11140 326297002638 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 326297002639 putative catalytic residues [active] 326297002640 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 326297002641 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 326297002642 ATP binding site [chemical binding]; other site 326297002643 Mg++ binding site [ion binding]; other site 326297002644 motif III; other site 326297002645 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 326297002646 nucleotide binding region [chemical binding]; other site 326297002647 ATP-binding site [chemical binding]; other site 326297002648 Response regulator receiver domain; Region: Response_reg; pfam00072 326297002649 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297002650 active site 326297002651 phosphorylation site [posttranslational modification] 326297002652 intermolecular recognition site; other site 326297002653 dimerization interface [polypeptide binding]; other site 326297002654 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 326297002655 Protein of unknown function (DUF523); Region: DUF523; pfam04463 326297002656 Uncharacterized conserved protein [Function unknown]; Region: COG3272 326297002657 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 326297002658 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 326297002659 DNA photolyase; Region: DNA_photolyase; pfam00875 326297002660 SnoaL-like domain; Region: SnoaL_2; pfam12680 326297002661 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 326297002662 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 326297002663 NAD(P) binding site [chemical binding]; other site 326297002664 active site 326297002665 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 326297002666 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 326297002667 hydroxyglutarate oxidase; Provisional; Region: PRK11728 326297002668 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 326297002669 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 326297002670 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 326297002671 S-adenosylmethionine binding site [chemical binding]; other site 326297002672 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 326297002673 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 326297002674 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 326297002675 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 326297002676 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 326297002677 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 326297002678 fumarate hydratase; Reviewed; Region: fumC; PRK00485 326297002679 Class II fumarases; Region: Fumarase_classII; cd01362 326297002680 active site 326297002681 tetramer interface [polypeptide binding]; other site 326297002682 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 326297002683 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 326297002684 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 326297002685 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 326297002686 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 326297002687 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 326297002688 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 326297002689 DNA binding residues [nucleotide binding] 326297002690 DNA primase; Validated; Region: dnaG; PRK05667 326297002691 CHC2 zinc finger; Region: zf-CHC2; pfam01807 326297002692 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 326297002693 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 326297002694 active site 326297002695 metal binding site [ion binding]; metal-binding site 326297002696 interdomain interaction site; other site 326297002697 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 326297002698 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 326297002699 Yqey-like protein; Region: YqeY; pfam09424 326297002700 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 326297002701 UGMP family protein; Validated; Region: PRK09604 326297002702 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 326297002703 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 326297002704 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 326297002705 homooctamer interface [polypeptide binding]; other site 326297002706 active site 326297002707 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 326297002708 catalytic center binding site [active] 326297002709 ATP binding site [chemical binding]; other site 326297002710 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 326297002711 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 326297002712 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238; cl11539 326297002713 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 326297002714 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 326297002715 active site 326297002716 NTP binding site [chemical binding]; other site 326297002717 metal binding triad [ion binding]; metal-binding site 326297002718 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 326297002719 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 326297002720 Zn2+ binding site [ion binding]; other site 326297002721 Mg2+ binding site [ion binding]; other site 326297002722 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 326297002723 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 326297002724 Walker A motif; other site 326297002725 ATP binding site [chemical binding]; other site 326297002726 Walker B motif; other site 326297002727 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 326297002728 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 326297002729 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 326297002730 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 326297002731 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 326297002732 inhibitor-cofactor binding pocket; inhibition site 326297002733 pyridoxal 5'-phosphate binding site [chemical binding]; other site 326297002734 catalytic residue [active] 326297002735 aspartate carbamoyltransferase; Provisional; Region: PRK08192 326297002736 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 326297002737 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 326297002738 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 326297002739 Cl- selectivity filter; other site 326297002740 Cl- binding residues [ion binding]; other site 326297002741 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 326297002742 pore gating glutamate residue; other site 326297002743 dimer interface [polypeptide binding]; other site 326297002744 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 326297002745 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 326297002746 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 326297002747 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 326297002748 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 326297002749 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 326297002750 DNA binding site [nucleotide binding] 326297002751 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 326297002752 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 326297002753 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 326297002754 putative peptidase; Provisional; Region: PRK11649 326297002755 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 326297002756 Peptidase family M23; Region: Peptidase_M23; pfam01551 326297002757 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 326297002758 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 326297002759 active site 326297002760 HIGH motif; other site 326297002761 dimer interface [polypeptide binding]; other site 326297002762 KMSKS motif; other site 326297002763 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 326297002764 RNA binding surface [nucleotide binding]; other site 326297002765 SnoaL-like domain; Region: SnoaL_2; pfam12680 326297002766 UPF0126 domain; Region: UPF0126; pfam03458 326297002767 Predicted membrane protein [Function unknown]; Region: COG2860 326297002768 UPF0126 domain; Region: UPF0126; pfam03458 326297002769 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 326297002770 CobD/Cbib protein; Region: CobD_Cbib; cl00561 326297002771 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 326297002772 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 326297002773 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 326297002774 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 326297002775 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 326297002776 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 326297002777 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 326297002778 active site 326297002779 dimer interface [polypeptide binding]; other site 326297002780 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 326297002781 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 326297002782 active site 326297002783 FMN binding site [chemical binding]; other site 326297002784 substrate binding site [chemical binding]; other site 326297002785 3Fe-4S cluster binding site [ion binding]; other site 326297002786 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 326297002787 domain interface; other site 326297002788 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 326297002789 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 326297002790 FeS/SAM binding site; other site 326297002791 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 326297002792 putative binding surface; other site 326297002793 active site 326297002794 Transcriptional regulator [Transcription]; Region: LysR; COG0583 326297002795 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297002796 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 326297002797 dimerization interface [polypeptide binding]; other site 326297002798 cyclase homology domain; Region: CHD; cd07302 326297002799 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 326297002800 nucleotidyl binding site; other site 326297002801 metal binding site [ion binding]; metal-binding site 326297002802 dimer interface [polypeptide binding]; other site 326297002803 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 326297002804 putative DNA-binding cleft [nucleotide binding]; other site 326297002805 putative DNA clevage site; other site 326297002806 molecular lever; other site 326297002807 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 326297002808 putative active site [active] 326297002809 Ap4A binding site [chemical binding]; other site 326297002810 nudix motif; other site 326297002811 putative metal binding site [ion binding]; other site 326297002812 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 326297002813 GAF domain; Region: GAF; pfam01590 326297002814 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 326297002815 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 326297002816 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 326297002817 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 326297002818 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 326297002819 thymidylate synthase; Reviewed; Region: thyA; PRK01827 326297002820 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 326297002821 dimerization interface [polypeptide binding]; other site 326297002822 active site 326297002823 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 326297002824 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 326297002825 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297002826 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 326297002827 dimerization interface [polypeptide binding]; other site 326297002828 Uncharacterized conserved protein [Function unknown]; Region: COG2938 326297002829 L-aspartate oxidase; Provisional; Region: PRK09077 326297002830 L-aspartate oxidase; Provisional; Region: PRK06175 326297002831 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 326297002832 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 326297002833 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 326297002834 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 326297002835 DNA binding residues [nucleotide binding] 326297002836 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 326297002837 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 326297002838 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 326297002839 anti-sigma E factor; Provisional; Region: rseB; PRK09455 326297002840 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 326297002841 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 326297002842 GTP-binding protein LepA; Provisional; Region: PRK05433 326297002843 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 326297002844 G1 box; other site 326297002845 putative GEF interaction site [polypeptide binding]; other site 326297002846 GTP/Mg2+ binding site [chemical binding]; other site 326297002847 Switch I region; other site 326297002848 G2 box; other site 326297002849 G3 box; other site 326297002850 Switch II region; other site 326297002851 G4 box; other site 326297002852 G5 box; other site 326297002853 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 326297002854 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 326297002855 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 326297002856 signal peptidase I; Provisional; Region: PRK10861 326297002857 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 326297002858 Catalytic site [active] 326297002859 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 326297002860 ribonuclease III; Reviewed; Region: rnc; PRK00102 326297002861 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 326297002862 dimerization interface [polypeptide binding]; other site 326297002863 active site 326297002864 metal binding site [ion binding]; metal-binding site 326297002865 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 326297002866 dsRNA binding site [nucleotide binding]; other site 326297002867 GTPase Era; Reviewed; Region: era; PRK00089 326297002868 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 326297002869 G1 box; other site 326297002870 GTP/Mg2+ binding site [chemical binding]; other site 326297002871 Switch I region; other site 326297002872 G2 box; other site 326297002873 Switch II region; other site 326297002874 G3 box; other site 326297002875 G4 box; other site 326297002876 G5 box; other site 326297002877 KH domain; Region: KH_2; pfam07650 326297002878 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 326297002879 Recombination protein O N terminal; Region: RecO_N; pfam11967 326297002880 Recombination protein O C terminal; Region: RecO_C; pfam02565 326297002881 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...; Region: PNPsynthase; cd00003 326297002882 active site 326297002883 hydrophilic channel; other site 326297002884 dimerization interface [polypeptide binding]; other site 326297002885 catalytic residues [active] 326297002886 active site lid [active] 326297002887 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 326297002888 Protein of unknown function (DUF962); Region: DUF962; cl01879 326297002889 hypothetical protein; Provisional; Region: PRK11573 326297002890 Domain of unknown function DUF21; Region: DUF21; pfam01595 326297002891 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 326297002892 Transporter associated domain; Region: CorC_HlyC; smart01091 326297002893 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 326297002894 signal recognition particle protein; Provisional; Region: PRK10867 326297002895 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 326297002896 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 326297002897 P loop; other site 326297002898 GTP binding site [chemical binding]; other site 326297002899 Signal peptide binding domain; Region: SRP_SPB; pfam02978 326297002900 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 326297002901 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 326297002902 RimM N-terminal domain; Region: RimM; pfam01782 326297002903 PRC-barrel domain; Region: PRC; pfam05239 326297002904 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 326297002905 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 326297002906 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 326297002907 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 326297002908 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 326297002909 Chorismate mutase type II; Region: CM_2; cl00693 326297002910 prephenate dehydrogenase; Validated; Region: PRK08507 326297002911 hybrid cluster protein; Provisional; Region: PRK05290 326297002912 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 326297002913 ACS interaction site; other site 326297002914 CODH interaction site; other site 326297002915 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 326297002916 hybrid metal cluster; other site 326297002917 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 326297002918 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 326297002919 FAD binding pocket [chemical binding]; other site 326297002920 FAD binding motif [chemical binding]; other site 326297002921 phosphate binding motif [ion binding]; other site 326297002922 beta-alpha-beta structure motif; other site 326297002923 NAD binding pocket [chemical binding]; other site 326297002924 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 326297002925 catalytic loop [active] 326297002926 iron binding site [ion binding]; other site 326297002927 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 326297002928 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 326297002929 Prephenate dehydratase; Region: PDT; pfam00800 326297002930 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 326297002931 putative L-Phe binding site [chemical binding]; other site 326297002932 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 326297002933 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 326297002934 30S subunit binding site; other site 326297002935 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 326297002936 Cytochrome C' Region: Cytochrom_C_2; pfam01322 326297002937 Trp repressor protein; Region: Trp_repressor; pfam01371 326297002938 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 326297002939 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 326297002940 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 326297002941 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 326297002942 putative catalytic residues [active] 326297002943 putative nucleotide binding site [chemical binding]; other site 326297002944 putative aspartate binding site [chemical binding]; other site 326297002945 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 326297002946 dimer interface [polypeptide binding]; other site 326297002947 putative threonine allosteric regulatory site; other site 326297002948 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 326297002949 putative threonine allosteric regulatory site; other site 326297002950 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 326297002951 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 326297002952 homoserine kinase; Provisional; Region: PRK01212 326297002953 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 326297002954 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 326297002955 threonine synthase; Validated; Region: PRK09225 326297002956 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 326297002957 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 326297002958 catalytic residue [active] 326297002959 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 326297002960 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 326297002961 dimer interface [polypeptide binding]; other site 326297002962 phosphorylation site [posttranslational modification] 326297002963 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 326297002964 ATP binding site [chemical binding]; other site 326297002965 Mg2+ binding site [ion binding]; other site 326297002966 G-X-G motif; other site 326297002967 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297002968 Response regulator receiver domain; Region: Response_reg; pfam00072 326297002969 active site 326297002970 phosphorylation site [posttranslational modification] 326297002971 intermolecular recognition site; other site 326297002972 dimerization interface [polypeptide binding]; other site 326297002973 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297002974 Response regulator receiver domain; Region: Response_reg; pfam00072 326297002975 active site 326297002976 phosphorylation site [posttranslational modification] 326297002977 intermolecular recognition site; other site 326297002978 dimerization interface [polypeptide binding]; other site 326297002979 Hemerythrin-like domain; Region: Hr-like; cd12108 326297002980 Protein of unknown function (DUF3545); Region: DUF3545; pfam12065 326297002981 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 326297002982 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 326297002983 active site 326297002984 dimer interface [polypeptide binding]; other site 326297002985 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 326297002986 dimer interface [polypeptide binding]; other site 326297002987 active site 326297002988 transaldolase-like protein; Provisional; Region: PTZ00411 326297002989 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 326297002990 active site 326297002991 dimer interface [polypeptide binding]; other site 326297002992 catalytic residue [active] 326297002993 outer membrane protein A; Reviewed; Region: PRK10808 326297002994 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 326297002995 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 326297002996 ligand binding site [chemical binding]; other site 326297002997 putative phosphoketolase; Provisional; Region: PRK05261 326297002998 XFP N-terminal domain; Region: XFP_N; pfam09364 326297002999 XFP C-terminal domain; Region: XFP_C; pfam09363 326297003000 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 326297003001 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 326297003002 hypothetical protein; Validated; Region: PRK02101 326297003003 Transposase IS200 like; Region: Y1_Tnp; pfam01797 326297003004 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 326297003005 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 326297003006 PA/protease or protease-like domain interface [polypeptide binding]; other site 326297003007 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 326297003008 Peptidase family M28; Region: Peptidase_M28; pfam04389 326297003009 metal binding site [ion binding]; metal-binding site 326297003010 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 326297003011 dimerization interface [polypeptide binding]; other site 326297003012 putative DNA binding site [nucleotide binding]; other site 326297003013 putative Zn2+ binding site [ion binding]; other site 326297003014 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 326297003015 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 326297003016 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 326297003017 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 326297003018 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 326297003019 active site 326297003020 Riboflavin kinase; Region: Flavokinase; smart00904 326297003021 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 326297003022 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 326297003023 active site 326297003024 HIGH motif; other site 326297003025 nucleotide binding site [chemical binding]; other site 326297003026 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 326297003027 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 326297003028 active site 326297003029 KMSKS motif; other site 326297003030 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 326297003031 tRNA binding surface [nucleotide binding]; other site 326297003032 anticodon binding site; other site 326297003033 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 326297003034 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 326297003035 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 326297003036 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 326297003037 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 326297003038 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 326297003039 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 326297003040 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 326297003041 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 326297003042 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 326297003043 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 326297003044 Type IV pilin PilA; Region: Pilin_PilA; pfam14245 326297003045 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 326297003046 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 326297003047 Type II transport protein GspH; Region: GspH; pfam12019 326297003048 Type II transport protein GspH; Region: GspH; pfam12019 326297003049 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 326297003050 Nitrogen regulatory protein P-II; Region: P-II; smart00938 326297003051 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 326297003052 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 326297003053 Transcriptional regulators [Transcription]; Region: PurR; COG1609 326297003054 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 326297003055 DNA binding site [nucleotide binding] 326297003056 domain linker motif; other site 326297003057 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 326297003058 putative dimerization interface [polypeptide binding]; other site 326297003059 putative ligand binding site [chemical binding]; other site 326297003060 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 326297003061 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 326297003062 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 326297003063 ligand-binding site [chemical binding]; other site 326297003064 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 326297003065 SapC; Region: SapC; pfam07277 326297003066 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 326297003067 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 326297003068 dimerization interface [polypeptide binding]; other site 326297003069 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 326297003070 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 326297003071 dimer interface [polypeptide binding]; other site 326297003072 putative CheW interface [polypeptide binding]; other site 326297003073 Putative carbohydrate binding domain; Region: CHB_HEX; smart01081 326297003074 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 326297003075 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 326297003076 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 326297003077 active site 326297003078 C-terminal Early set domain associated with the catalytic domain of chitobiase (also called N-acetylglucosaminidase); Region: E_set_Chitobiase_C; cd02847 326297003079 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 326297003080 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 326297003081 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 326297003082 dimer interface [polypeptide binding]; other site 326297003083 active site 326297003084 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 326297003085 dimer interface [polypeptide binding]; other site 326297003086 active site 326297003087 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 326297003088 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 326297003089 active site 326297003090 dimer interface [polypeptide binding]; other site 326297003091 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 326297003092 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 326297003093 L-fucose transporter; Provisional; Region: PRK10133; cl17665 326297003094 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 326297003095 hypothetical protein; Provisional; Region: PRK03757 326297003096 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 326297003097 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 326297003098 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 326297003099 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 326297003100 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 326297003101 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 326297003102 S-adenosylmethionine binding site [chemical binding]; other site 326297003103 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 326297003104 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 326297003105 Walker A motif; other site 326297003106 ATP binding site [chemical binding]; other site 326297003107 Walker B motif; other site 326297003108 arginine finger; other site 326297003109 Peptidase family M41; Region: Peptidase_M41; pfam01434 326297003110 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 326297003111 dihydropteroate synthase; Region: DHPS; TIGR01496 326297003112 substrate binding pocket [chemical binding]; other site 326297003113 dimer interface [polypeptide binding]; other site 326297003114 inhibitor binding site; inhibition site 326297003115 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 326297003116 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 326297003117 active site 326297003118 substrate binding site [chemical binding]; other site 326297003119 metal binding site [ion binding]; metal-binding site 326297003120 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 326297003121 triosephosphate isomerase; Provisional; Region: PRK14567 326297003122 substrate binding site [chemical binding]; other site 326297003123 dimer interface [polypeptide binding]; other site 326297003124 catalytic triad [active] 326297003125 Preprotein translocase SecG subunit; Region: SecG; pfam03840 326297003126 ribosome maturation protein RimP; Reviewed; Region: PRK00092 326297003127 Sm and related proteins; Region: Sm_like; cl00259 326297003128 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 326297003129 putative oligomer interface [polypeptide binding]; other site 326297003130 putative RNA binding site [nucleotide binding]; other site 326297003131 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 326297003132 NusA N-terminal domain; Region: NusA_N; pfam08529 326297003133 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 326297003134 RNA binding site [nucleotide binding]; other site 326297003135 homodimer interface [polypeptide binding]; other site 326297003136 NusA-like KH domain; Region: KH_5; pfam13184 326297003137 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 326297003138 G-X-X-G motif; other site 326297003139 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 326297003140 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 326297003141 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 326297003142 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 326297003143 translation initiation factor IF-2; Region: IF-2; TIGR00487 326297003144 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 326297003145 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 326297003146 G1 box; other site 326297003147 putative GEF interaction site [polypeptide binding]; other site 326297003148 GTP/Mg2+ binding site [chemical binding]; other site 326297003149 Switch I region; other site 326297003150 G2 box; other site 326297003151 G3 box; other site 326297003152 Switch II region; other site 326297003153 G4 box; other site 326297003154 G5 box; other site 326297003155 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 326297003156 Translation-initiation factor 2; Region: IF-2; pfam11987 326297003157 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 326297003158 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 326297003159 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 326297003160 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 326297003161 RNA binding site [nucleotide binding]; other site 326297003162 active site 326297003163 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 326297003164 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 326297003165 16S/18S rRNA binding site [nucleotide binding]; other site 326297003166 S13e-L30e interaction site [polypeptide binding]; other site 326297003167 25S rRNA binding site [nucleotide binding]; other site 326297003168 biofilm formation regulator HmsP; Provisional; Region: PRK11829 326297003169 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297003170 metal binding site [ion binding]; metal-binding site 326297003171 active site 326297003172 I-site; other site 326297003173 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 326297003174 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 326297003175 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 326297003176 RNase E interface [polypeptide binding]; other site 326297003177 trimer interface [polypeptide binding]; other site 326297003178 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 326297003179 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 326297003180 RNase E interface [polypeptide binding]; other site 326297003181 trimer interface [polypeptide binding]; other site 326297003182 active site 326297003183 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 326297003184 putative nucleic acid binding region [nucleotide binding]; other site 326297003185 G-X-X-G motif; other site 326297003186 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 326297003187 RNA binding site [nucleotide binding]; other site 326297003188 domain interface; other site 326297003189 lipoprotein NlpI; Provisional; Region: PRK11189 326297003190 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 326297003191 binding surface 326297003192 TPR motif; other site 326297003193 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 326297003194 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 326297003195 G1 box; other site 326297003196 putative GEF interaction site [polypeptide binding]; other site 326297003197 GTP/Mg2+ binding site [chemical binding]; other site 326297003198 Switch I region; other site 326297003199 G2 box; other site 326297003200 G3 box; other site 326297003201 Switch II region; other site 326297003202 G4 box; other site 326297003203 G5 box; other site 326297003204 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 326297003205 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 326297003206 active site 326297003207 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 326297003208 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 326297003209 Nucleoside recognition; Region: Gate; pfam07670 326297003210 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 326297003211 hypothetical protein; Provisional; Region: PRK11528 326297003212 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 326297003213 intersubunit interface [polypeptide binding]; other site 326297003214 active site 326297003215 catalytic residue [active] 326297003216 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 326297003217 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 326297003218 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 326297003219 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 326297003220 phosphopentomutase; Provisional; Region: PRK05362 326297003221 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 326297003222 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 326297003223 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 326297003224 phosphoserine phosphatase SerB; Region: serB; TIGR00338 326297003225 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 326297003226 motif II; other site 326297003227 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 326297003228 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 326297003229 PilZ domain; Region: PilZ; pfam07238 326297003230 PilZ domain; Region: PilZ; pfam07238 326297003231 DNA repair protein RadA; Provisional; Region: PRK11823 326297003232 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 326297003233 Walker A motif/ATP binding site; other site 326297003234 ATP binding site [chemical binding]; other site 326297003235 Walker B motif; other site 326297003236 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 326297003237 PilZ domain; Region: PilZ; pfam07238 326297003238 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 326297003239 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297003240 active site 326297003241 phosphorylation site [posttranslational modification] 326297003242 intermolecular recognition site; other site 326297003243 dimerization interface [polypeptide binding]; other site 326297003244 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 326297003245 DNA binding site [nucleotide binding] 326297003246 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 326297003247 TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria; Region: PBP1_TorT-like; cd06306 326297003248 putative ligand binding site [chemical binding]; other site 326297003249 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 326297003250 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 326297003251 dimer interface [polypeptide binding]; other site 326297003252 phosphorylation site [posttranslational modification] 326297003253 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 326297003254 ATP binding site [chemical binding]; other site 326297003255 Mg2+ binding site [ion binding]; other site 326297003256 G-X-G motif; other site 326297003257 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297003258 active site 326297003259 phosphorylation site [posttranslational modification] 326297003260 intermolecular recognition site; other site 326297003261 dimerization interface [polypeptide binding]; other site 326297003262 chaperone protein TorD; Validated; Region: torD; PRK04976 326297003263 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 326297003264 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 326297003265 molybdopterin cofactor binding site [chemical binding]; other site 326297003266 substrate binding site [chemical binding]; other site 326297003267 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 326297003268 molybdopterin cofactor binding site; other site 326297003269 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 326297003270 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 326297003271 Periplasmic nitrate reductase protein NapE; Region: NapE; pfam06796 326297003272 FOG: CBS domain [General function prediction only]; Region: COG0517 326297003273 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_24; cd04637 326297003274 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 326297003275 putative acyl-acceptor binding pocket; other site 326297003276 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 326297003277 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 326297003278 putative active site [active] 326297003279 putative metal binding site [ion binding]; other site 326297003280 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 326297003281 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 326297003282 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 326297003283 PAS fold; Region: PAS_3; pfam08447 326297003284 putative active site [active] 326297003285 heme pocket [chemical binding]; other site 326297003286 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 326297003287 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 326297003288 ATP binding site [chemical binding]; other site 326297003289 Mg2+ binding site [ion binding]; other site 326297003290 G-X-G motif; other site 326297003291 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 326297003292 Nucleoside recognition; Region: Gate; pfam07670 326297003293 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 326297003294 PAS domain; Region: PAS_9; pfam13426 326297003295 putative active site [active] 326297003296 heme pocket [chemical binding]; other site 326297003297 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 326297003298 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 326297003299 dimer interface [polypeptide binding]; other site 326297003300 putative CheW interface [polypeptide binding]; other site 326297003301 putative protease; Provisional; Region: PRK15447 326297003302 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 326297003303 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 326297003304 Peptidase family U32; Region: Peptidase_U32; pfam01136 326297003305 SCP-2 sterol transfer family; Region: SCP2; cl01225 326297003306 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 326297003307 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 326297003308 HlyD family secretion protein; Region: HlyD_3; pfam13437 326297003309 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 326297003310 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 326297003311 putative protease; Provisional; Region: PRK15452 326297003312 Peptidase family U32; Region: Peptidase_U32; pfam01136 326297003313 HDOD domain; Region: HDOD; pfam08668 326297003314 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297003315 metal binding site [ion binding]; metal-binding site 326297003316 active site 326297003317 I-site; other site 326297003318 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 326297003319 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 326297003320 active site 326297003321 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 326297003322 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 326297003323 membrane-bound complex binding site; other site 326297003324 hinge residues; other site 326297003325 von Willebrand factor type A domain; Region: VWA_2; pfam13519 326297003326 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 326297003327 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 326297003328 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 326297003329 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 326297003330 substrate binding pocket [chemical binding]; other site 326297003331 membrane-bound complex binding site; other site 326297003332 hinge residues; other site 326297003333 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 326297003334 Shewanella-like phosphatases, metallophosphatase domain; Region: MPP_Shelphs; cd07425 326297003335 active site 326297003336 metal binding site [ion binding]; metal-binding site 326297003337 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 326297003338 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 326297003339 Walker A/P-loop; other site 326297003340 ATP binding site [chemical binding]; other site 326297003341 Q-loop/lid; other site 326297003342 ABC transporter signature motif; other site 326297003343 Walker B; other site 326297003344 D-loop; other site 326297003345 H-loop/switch region; other site 326297003346 ABC transporter; Region: ABC_tran_2; pfam12848 326297003347 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 326297003348 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 326297003349 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 326297003350 dimer interface [polypeptide binding]; other site 326297003351 active site 326297003352 glycine-pyridoxal phosphate binding site [chemical binding]; other site 326297003353 folate binding site [chemical binding]; other site 326297003354 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 326297003355 ATP cone domain; Region: ATP-cone; pfam03477 326297003356 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 326297003357 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 326297003358 catalytic motif [active] 326297003359 Zn binding site [ion binding]; other site 326297003360 RibD C-terminal domain; Region: RibD_C; cl17279 326297003361 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 326297003362 Lumazine binding domain; Region: Lum_binding; pfam00677 326297003363 Lumazine binding domain; Region: Lum_binding; pfam00677 326297003364 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 326297003365 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 326297003366 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 326297003367 dimerization interface [polypeptide binding]; other site 326297003368 active site 326297003369 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 326297003370 homopentamer interface [polypeptide binding]; other site 326297003371 active site 326297003372 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 326297003373 putative RNA binding site [nucleotide binding]; other site 326297003374 thiamine monophosphate kinase; Provisional; Region: PRK05731 326297003375 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 326297003376 ATP binding site [chemical binding]; other site 326297003377 dimerization interface [polypeptide binding]; other site 326297003378 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 326297003379 tetramer interfaces [polypeptide binding]; other site 326297003380 binuclear metal-binding site [ion binding]; other site 326297003381 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 326297003382 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 326297003383 dimer interface [polypeptide binding]; other site 326297003384 active site residues [active] 326297003385 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 326297003386 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 326297003387 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 326297003388 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 326297003389 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 326297003390 PYR/PP interface [polypeptide binding]; other site 326297003391 dimer interface [polypeptide binding]; other site 326297003392 TPP binding site [chemical binding]; other site 326297003393 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 326297003394 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; cd00568 326297003395 TPP-binding site [chemical binding]; other site 326297003396 recombination and repair protein; Provisional; Region: PRK10869 326297003397 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 326297003398 Walker A/P-loop; other site 326297003399 ATP binding site [chemical binding]; other site 326297003400 Q-loop/lid; other site 326297003401 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 326297003402 ABC transporter signature motif; other site 326297003403 Walker B; other site 326297003404 D-loop; other site 326297003405 H-loop/switch region; other site 326297003406 Predicted permeases [General function prediction only]; Region: COG0679 326297003407 Transcriptional regulator [Transcription]; Region: LysR; COG0583 326297003408 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297003409 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 326297003410 putative effector binding pocket; other site 326297003411 dimerization interface [polypeptide binding]; other site 326297003412 Protein of unknown function (DUF3319); Region: DUF3319; pfam11782 326297003413 Protein of unknown function (DUF416); Region: DUF416; pfam04222 326297003414 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 326297003415 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 326297003416 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 326297003417 dimerization interface [polypeptide binding]; other site 326297003418 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 326297003419 dimer interface [polypeptide binding]; other site 326297003420 phosphorylation site [posttranslational modification] 326297003421 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 326297003422 ATP binding site [chemical binding]; other site 326297003423 Mg2+ binding site [ion binding]; other site 326297003424 G-X-G motif; other site 326297003425 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297003426 active site 326297003427 phosphorylation site [posttranslational modification] 326297003428 intermolecular recognition site; other site 326297003429 dimerization interface [polypeptide binding]; other site 326297003430 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 326297003431 putative binding surface; other site 326297003432 active site 326297003433 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 326297003434 TRAM domain; Region: TRAM; pfam01938 326297003435 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 326297003436 S-adenosylmethionine binding site [chemical binding]; other site 326297003437 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 326297003438 HD domain; Region: HD_4; pfam13328 326297003439 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 326297003440 synthetase active site [active] 326297003441 NTP binding site [chemical binding]; other site 326297003442 metal binding site [ion binding]; metal-binding site 326297003443 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 326297003444 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 326297003445 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 326297003446 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 326297003447 homodimer interface [polypeptide binding]; other site 326297003448 metal binding site [ion binding]; metal-binding site 326297003449 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 326297003450 homodimer interface [polypeptide binding]; other site 326297003451 active site 326297003452 putative chemical substrate binding site [chemical binding]; other site 326297003453 metal binding site [ion binding]; metal-binding site 326297003454 CTP synthetase; Validated; Region: pyrG; PRK05380 326297003455 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 326297003456 Catalytic site [active] 326297003457 active site 326297003458 UTP binding site [chemical binding]; other site 326297003459 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 326297003460 active site 326297003461 putative oxyanion hole; other site 326297003462 catalytic triad [active] 326297003463 enolase; Provisional; Region: eno; PRK00077 326297003464 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 326297003465 dimer interface [polypeptide binding]; other site 326297003466 metal binding site [ion binding]; metal-binding site 326297003467 substrate binding pocket [chemical binding]; other site 326297003468 Septum formation initiator; Region: DivIC; cl17659 326297003469 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 326297003470 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 326297003471 substrate binding site; other site 326297003472 dimer interface; other site 326297003473 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 326297003474 homotrimer interaction site [polypeptide binding]; other site 326297003475 zinc binding site [ion binding]; other site 326297003476 CDP-binding sites; other site 326297003477 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 326297003478 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 326297003479 Permutation of conserved domain; other site 326297003480 active site 326297003481 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 326297003482 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 326297003483 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 326297003484 S-adenosylmethionine binding site [chemical binding]; other site 326297003485 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 326297003486 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 326297003487 Peptidase family M23; Region: Peptidase_M23; pfam01551 326297003488 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 326297003489 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 326297003490 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 326297003491 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 326297003492 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 326297003493 DNA binding residues [nucleotide binding] 326297003494 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 326297003495 MutS domain I; Region: MutS_I; pfam01624 326297003496 MutS domain II; Region: MutS_II; pfam05188 326297003497 MutS domain III; Region: MutS_III; pfam05192 326297003498 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 326297003499 Walker A/P-loop; other site 326297003500 ATP binding site [chemical binding]; other site 326297003501 Q-loop/lid; other site 326297003502 ABC transporter signature motif; other site 326297003503 Walker B; other site 326297003504 D-loop; other site 326297003505 H-loop/switch region; other site 326297003506 recombinase A; Provisional; Region: recA; PRK09354 326297003507 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 326297003508 hexamer interface [polypeptide binding]; other site 326297003509 Walker A motif; other site 326297003510 ATP binding site [chemical binding]; other site 326297003511 Walker B motif; other site 326297003512 recombination regulator RecX; Reviewed; Region: recX; PRK00117 326297003513 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 326297003514 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 326297003515 motif 1; other site 326297003516 active site 326297003517 motif 2; other site 326297003518 motif 3; other site 326297003519 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 326297003520 DHHA1 domain; Region: DHHA1; pfam02272 326297003521 aspartate kinase; Reviewed; Region: PRK06635 326297003522 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 326297003523 putative nucleotide binding site [chemical binding]; other site 326297003524 putative catalytic residues [active] 326297003525 putative Mg ion binding site [ion binding]; other site 326297003526 putative aspartate binding site [chemical binding]; other site 326297003527 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 326297003528 putative allosteric regulatory site; other site 326297003529 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 326297003530 putative allosteric regulatory residue; other site 326297003531 carbon storage regulator; Provisional; Region: PRK01712 326297003532 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 326297003533 oxaloacetate decarboxylase; Provisional; Region: PRK14040 326297003534 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 326297003535 active site 326297003536 catalytic residues [active] 326297003537 metal binding site [ion binding]; metal-binding site 326297003538 homodimer binding site [polypeptide binding]; other site 326297003539 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 326297003540 carboxyltransferase (CT) interaction site; other site 326297003541 biotinylation site [posttranslational modification]; other site 326297003542 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 326297003543 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 326297003544 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 326297003545 Predicted membrane protein [Function unknown]; Region: COG1238 326297003546 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 326297003547 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 326297003548 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 326297003549 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 326297003550 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 326297003551 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 326297003552 glutamate--cysteine ligase; Provisional; Region: PRK02107 326297003553 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 326297003554 N-acetyl-D-glucosamine binding site [chemical binding]; other site 326297003555 catalytic residue [active] 326297003556 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 326297003557 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 326297003558 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 326297003559 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 326297003560 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 326297003561 GAF domain; Region: GAF; pfam01590 326297003562 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297003563 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297003564 metal binding site [ion binding]; metal-binding site 326297003565 active site 326297003566 I-site; other site 326297003567 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 326297003568 ATP-grasp domain; Region: ATP-grasp; pfam02222 326297003569 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 326297003570 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 326297003571 SPFH domain / Band 7 family; Region: Band_7; pfam01145 326297003572 putative transporter; Provisional; Region: PRK11660 326297003573 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 326297003574 Sulfate transporter family; Region: Sulfate_transp; pfam00916 326297003575 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 326297003576 RNA polymerase sigma factor; Provisional; Region: PRK12513 326297003577 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 326297003578 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 326297003579 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 326297003580 substrate binding pocket [chemical binding]; other site 326297003581 membrane-bound complex binding site; other site 326297003582 hinge residues; other site 326297003583 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 326297003584 Zn2+ binding site [ion binding]; other site 326297003585 Mg2+ binding site [ion binding]; other site 326297003586 recombination associated protein; Reviewed; Region: rdgC; PRK00321 326297003587 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 326297003588 trimer interface [polypeptide binding]; other site 326297003589 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 326297003590 eyelet of channel; other site 326297003591 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 326297003592 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297003593 active site 326297003594 phosphorylation site [posttranslational modification] 326297003595 intermolecular recognition site; other site 326297003596 dimerization interface [polypeptide binding]; other site 326297003597 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 326297003598 DNA binding site [nucleotide binding] 326297003599 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 326297003600 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 326297003601 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 326297003602 putative active site [active] 326297003603 heme pocket [chemical binding]; other site 326297003604 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 326297003605 dimer interface [polypeptide binding]; other site 326297003606 phosphorylation site [posttranslational modification] 326297003607 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 326297003608 ATP binding site [chemical binding]; other site 326297003609 Mg2+ binding site [ion binding]; other site 326297003610 G-X-G motif; other site 326297003611 PBP superfamily domain; Region: PBP_like_2; cl17296 326297003612 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 326297003613 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 326297003614 Peptidase M1 family contains leukotriene A4 hydrolase; Region: M1_LTA4H; cd09599 326297003615 active site 326297003616 Zn binding site [ion binding]; other site 326297003617 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 326297003618 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 326297003619 catalytic residues [active] 326297003620 dimer interface [polypeptide binding]; other site 326297003621 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 326297003622 MgtE intracellular N domain; Region: MgtE_N; smart00924 326297003623 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 326297003624 Divalent cation transporter; Region: MgtE; cl00786 326297003625 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 326297003626 Coenzyme A binding pocket [chemical binding]; other site 326297003627 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 326297003628 EamA-like transporter family; Region: EamA; pfam00892 326297003629 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 326297003630 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 326297003631 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297003632 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297003633 metal binding site [ion binding]; metal-binding site 326297003634 active site 326297003635 I-site; other site 326297003636 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 326297003637 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 326297003638 S-adenosylmethionine binding site [chemical binding]; other site 326297003639 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 326297003640 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 326297003641 C-terminal domain interface [polypeptide binding]; other site 326297003642 GSH binding site (G-site) [chemical binding]; other site 326297003643 dimer interface [polypeptide binding]; other site 326297003644 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 326297003645 N-terminal domain interface [polypeptide binding]; other site 326297003646 putative dimer interface [polypeptide binding]; other site 326297003647 active site 326297003648 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 326297003649 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 326297003650 putative C-terminal domain interface [polypeptide binding]; other site 326297003651 putative GSH binding site (G-site) [chemical binding]; other site 326297003652 putative dimer interface [polypeptide binding]; other site 326297003653 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 326297003654 N-terminal domain interface [polypeptide binding]; other site 326297003655 dimer interface [polypeptide binding]; other site 326297003656 substrate binding pocket (H-site) [chemical binding]; other site 326297003657 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 326297003658 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 326297003659 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 326297003660 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; smart00782 326297003661 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 326297003662 PhnA protein; Region: PhnA; pfam03831 326297003663 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 326297003664 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 326297003665 putative active site [active] 326297003666 Zn binding site [ion binding]; other site 326297003667 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 326297003668 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 326297003669 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 326297003670 Domain of unknown function (DUF333); Region: DUF333; pfam03891 326297003671 Domain of unknown function (DUF333); Region: DUF333; pfam03891 326297003672 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 326297003673 EamA-like transporter family; Region: EamA; pfam00892 326297003674 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 326297003675 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 326297003676 Coenzyme A binding pocket [chemical binding]; other site 326297003677 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 326297003678 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 326297003679 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 326297003680 PA/protease or protease-like domain interface [polypeptide binding]; other site 326297003681 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 326297003682 metal binding site [ion binding]; metal-binding site 326297003683 HYR domain; Region: HYR; pfam02494 326297003684 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 326297003685 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 326297003686 dimer interface [polypeptide binding]; other site 326297003687 phosphorylation site [posttranslational modification] 326297003688 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 326297003689 ATP binding site [chemical binding]; other site 326297003690 Mg2+ binding site [ion binding]; other site 326297003691 G-X-G motif; other site 326297003692 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 326297003693 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297003694 active site 326297003695 phosphorylation site [posttranslational modification] 326297003696 intermolecular recognition site; other site 326297003697 dimerization interface [polypeptide binding]; other site 326297003698 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 326297003699 DNA binding site [nucleotide binding] 326297003700 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 326297003701 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 326297003702 dimer interface [polypeptide binding]; other site 326297003703 phosphorylation site [posttranslational modification] 326297003704 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 326297003705 ATP binding site [chemical binding]; other site 326297003706 Mg2+ binding site [ion binding]; other site 326297003707 G-X-G motif; other site 326297003708 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 326297003709 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 326297003710 Coenzyme A binding pocket [chemical binding]; other site 326297003711 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 326297003712 catalytic core [active] 326297003713 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 326297003714 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 326297003715 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 326297003716 active site 326297003717 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 326297003718 AAA domain; Region: AAA_21; pfam13304 326297003719 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 326297003720 putative active site [active] 326297003721 putative metal-binding site [ion binding]; other site 326297003722 2-Nitropropane dioxygenase (NPD)-like domain, associated with the (acyl-carrier-protein) S-malonyltransferase FabD. NPD is part of the nitroalkaneoxidizing enzyme family, that catalyzes oxidative denitrification of nitroalkanes to their corresponding...; Region: NPD_FabD; cd04742 326297003723 FMN binding site [chemical binding]; other site 326297003724 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 326297003725 substrate binding site [chemical binding]; other site 326297003726 putative catalytic residue [active] 326297003727 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 326297003728 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 326297003729 active site 326297003730 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 326297003731 active site 326297003732 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 326297003733 active site 2 [active] 326297003734 dimer interface [polypeptide binding]; other site 326297003735 active site 1 [active] 326297003736 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 326297003737 active site 1 [active] 326297003738 dimer interface [polypeptide binding]; other site 326297003739 active site 2 [active] 326297003740 Acyl transferase domain; Region: Acyl_transf_1; cl08282 326297003741 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 326297003742 3-oxoacyl-acyl carrier protein synthase; Provisional; Region: PTZ00050 326297003743 active site 326297003744 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 326297003745 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 326297003746 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 326297003747 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 326297003748 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 326297003749 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 326297003750 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 326297003751 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 326297003752 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 326297003753 putative NADP binding site [chemical binding]; other site 326297003754 active site 326297003755 Winged helix-turn helix; Region: HTH_29; pfam13551 326297003756 elongation factor G; Reviewed; Region: PRK13351 326297003757 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 326297003758 G1 box; other site 326297003759 putative GEF interaction site [polypeptide binding]; other site 326297003760 GTP/Mg2+ binding site [chemical binding]; other site 326297003761 Switch I region; other site 326297003762 G2 box; other site 326297003763 G3 box; other site 326297003764 Switch II region; other site 326297003765 G4 box; other site 326297003766 G5 box; other site 326297003767 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 326297003768 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 326297003769 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 326297003770 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 326297003771 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 326297003772 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 326297003773 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 326297003774 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 326297003775 SecY interacting protein Syd; Provisional; Region: PRK04968 326297003776 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; pfam10071 326297003777 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 326297003778 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 326297003779 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 326297003780 Protein of unknown function (DUF962); Region: DUF962; pfam06127 326297003781 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 326297003782 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 326297003783 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 326297003784 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 326297003785 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 326297003786 probable active site [active] 326297003787 flavodoxin; Provisional; Region: PRK08105 326297003788 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 326297003789 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 326297003790 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 326297003791 active site turn [active] 326297003792 phosphorylation site [posttranslational modification] 326297003793 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 326297003794 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 326297003795 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 326297003796 putative active site [active] 326297003797 putative substrate binding site [chemical binding]; other site 326297003798 putative cosubstrate binding site; other site 326297003799 catalytic site [active] 326297003800 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 326297003801 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 326297003802 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 326297003803 trimer interface [polypeptide binding]; other site 326297003804 active site 326297003805 substrate binding site [chemical binding]; other site 326297003806 CoA binding site [chemical binding]; other site 326297003807 PII uridylyl-transferase; Provisional; Region: PRK05007 326297003808 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 326297003809 metal binding triad; other site 326297003810 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 326297003811 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 326297003812 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 326297003813 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 326297003814 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 326297003815 active site 326297003816 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 326297003817 rRNA interaction site [nucleotide binding]; other site 326297003818 S8 interaction site; other site 326297003819 putative laminin-1 binding site; other site 326297003820 elongation factor Ts; Provisional; Region: tsf; PRK09377 326297003821 UBA/TS-N domain; Region: UBA; pfam00627 326297003822 Elongation factor TS; Region: EF_TS; pfam00889 326297003823 Elongation factor TS; Region: EF_TS; pfam00889 326297003824 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 326297003825 putative nucleotide binding site [chemical binding]; other site 326297003826 uridine monophosphate binding site [chemical binding]; other site 326297003827 homohexameric interface [polypeptide binding]; other site 326297003828 ribosome recycling factor; Reviewed; Region: frr; PRK00083 326297003829 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 326297003830 hinge region; other site 326297003831 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 326297003832 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 326297003833 catalytic residue [active] 326297003834 putative FPP diphosphate binding site; other site 326297003835 putative FPP binding hydrophobic cleft; other site 326297003836 dimer interface [polypeptide binding]; other site 326297003837 putative IPP diphosphate binding site; other site 326297003838 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 326297003839 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 326297003840 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 326297003841 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 326297003842 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 326297003843 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 326297003844 zinc metallopeptidase RseP; Provisional; Region: PRK10779 326297003845 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 326297003846 active site 326297003847 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 326297003848 protein binding site [polypeptide binding]; other site 326297003849 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 326297003850 putative substrate binding region [chemical binding]; other site 326297003851 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 326297003852 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 326297003853 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 326297003854 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 326297003855 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 326297003856 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 326297003857 Surface antigen; Region: Bac_surface_Ag; pfam01103 326297003858 periplasmic chaperone; Provisional; Region: PRK10780 326297003859 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 326297003860 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 326297003861 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 326297003862 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 326297003863 trimer interface [polypeptide binding]; other site 326297003864 active site 326297003865 UDP-GlcNAc binding site [chemical binding]; other site 326297003866 lipid binding site [chemical binding]; lipid-binding site 326297003867 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 326297003868 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 326297003869 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 326297003870 active site 326297003871 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 326297003872 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 326297003873 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 326297003874 RNA/DNA hybrid binding site [nucleotide binding]; other site 326297003875 active site 326297003876 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 326297003877 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 326297003878 putative active site [active] 326297003879 putative PHP Thumb interface [polypeptide binding]; other site 326297003880 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 326297003881 generic binding surface II; other site 326297003882 generic binding surface I; other site 326297003883 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 326297003884 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 326297003885 Ligand Binding Site [chemical binding]; other site 326297003886 TilS substrate binding domain; Region: TilS; pfam09179 326297003887 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 326297003888 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 326297003889 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 326297003890 Coenzyme A binding pocket [chemical binding]; other site 326297003891 Peptidase_C39 like family; Region: DUF3335; pfam11814 326297003892 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 326297003893 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 326297003894 ATP-grasp domain; Region: ATP-grasp_4; cl17255 326297003895 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297003896 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297003897 metal binding site [ion binding]; metal-binding site 326297003898 active site 326297003899 I-site; other site 326297003900 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 326297003901 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 326297003902 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 326297003903 TrkA-N domain; Region: TrkA_N; pfam02254 326297003904 TrkA-C domain; Region: TrkA_C; pfam02080 326297003905 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 326297003906 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 326297003907 nucleophile elbow; other site 326297003908 prolyl-tRNA synthetase; Provisional; Region: PRK09194 326297003909 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 326297003910 dimer interface [polypeptide binding]; other site 326297003911 motif 1; other site 326297003912 active site 326297003913 motif 2; other site 326297003914 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 326297003915 putative deacylase active site [active] 326297003916 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 326297003917 active site 326297003918 motif 3; other site 326297003919 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 326297003920 anticodon binding site; other site 326297003921 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297003922 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297003923 metal binding site [ion binding]; metal-binding site 326297003924 active site 326297003925 I-site; other site 326297003926 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 326297003927 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 326297003928 putative trimer interface [polypeptide binding]; other site 326297003929 putative CoA binding site [chemical binding]; other site 326297003930 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 326297003931 trimer interface [polypeptide binding]; other site 326297003932 active site 326297003933 substrate binding site [chemical binding]; other site 326297003934 CoA binding site [chemical binding]; other site 326297003935 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 326297003936 homodimer interaction site [polypeptide binding]; other site 326297003937 cofactor binding site; other site 326297003938 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 326297003939 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 326297003940 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 326297003941 active site 326297003942 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 326297003943 active site 326297003944 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 326297003945 Amidohydrolase; Region: Amidohydro_4; pfam13147 326297003946 active site 326297003947 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 326297003948 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 326297003949 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 326297003950 Ligand binding site [chemical binding]; other site 326297003951 Electron transfer flavoprotein domain; Region: ETF; pfam01012 326297003952 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 326297003953 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 326297003954 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 326297003955 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 326297003956 dipeptidyl carboxypeptidase II; Provisional; Region: PRK10280 326297003957 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 326297003958 active site 326297003959 Zn binding site [ion binding]; other site 326297003960 thymidine kinase; Provisional; Region: PRK04296 326297003961 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 326297003962 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 326297003963 BCCT family transporter; Region: BCCT; pfam02028 326297003964 hypothetical protein; Provisional; Region: PRK11295 326297003965 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 326297003966 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 326297003967 putative substrate translocation pore; other site 326297003968 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 326297003969 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 326297003970 Methyltransferase domain; Region: Methyltransf_32; pfam13679 326297003971 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09258 326297003972 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 326297003973 dimer interface [polypeptide binding]; other site 326297003974 active site 326297003975 CoA binding pocket [chemical binding]; other site 326297003976 haloalkane dehalogenase; Provisional; Region: PRK03592 326297003977 peptide synthase; Provisional; Region: PRK09274 326297003978 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_1; cd05910 326297003979 acyl-activating enzyme (AAE) consensus motif; other site 326297003980 putative AMP binding site [chemical binding]; other site 326297003981 putative active site [active] 326297003982 putative CoA binding site [chemical binding]; other site 326297003983 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 326297003984 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 326297003985 NAD(P) binding site [chemical binding]; other site 326297003986 active site 326297003987 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 326297003988 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 326297003989 N-acetyl-D-glucosamine binding site [chemical binding]; other site 326297003990 catalytic residue [active] 326297003991 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 326297003992 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 326297003993 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 326297003994 Walker A/P-loop; other site 326297003995 ATP binding site [chemical binding]; other site 326297003996 Q-loop/lid; other site 326297003997 ABC transporter signature motif; other site 326297003998 Walker B; other site 326297003999 D-loop; other site 326297004000 H-loop/switch region; other site 326297004001 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 326297004002 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 326297004003 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 326297004004 Zn binding site [ion binding]; other site 326297004005 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 326297004006 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 326297004007 active site 326297004008 substrate binding site [chemical binding]; other site 326297004009 metal binding site [ion binding]; metal-binding site 326297004010 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 326297004011 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 326297004012 Predicted transcriptional regulator [Transcription]; Region: COG2378 326297004013 HTH domain; Region: HTH_11; pfam08279 326297004014 WYL domain; Region: WYL; pfam13280 326297004015 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 326297004016 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 326297004017 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 326297004018 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 326297004019 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 326297004020 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 326297004021 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 326297004022 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 326297004023 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; pfam08013 326297004024 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 326297004025 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 326297004026 dimer interface [polypeptide binding]; other site 326297004027 active site 326297004028 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases; Region: SIS_AgaS_like; cd05010 326297004029 putative active site [active] 326297004030 fructokinase; Reviewed; Region: PRK09557 326297004031 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 326297004032 nucleotide binding site [chemical binding]; other site 326297004033 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 326297004034 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 326297004035 active site 326297004036 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 326297004037 L-fucose transporter; Provisional; Region: PRK10133; cl17665 326297004038 putative pyridoxal-dependent aspartate 1-decarboxylase; Region: NOD_PanD_pyr; TIGR03799 326297004039 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 326297004040 catalytic residue [active] 326297004041 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 326297004042 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 326297004043 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 326297004044 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 326297004045 active site 326297004046 Zn binding site [ion binding]; other site 326297004047 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 326297004048 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297004049 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297004050 metal binding site [ion binding]; metal-binding site 326297004051 active site 326297004052 I-site; other site 326297004053 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 326297004054 putative uracil binding site [chemical binding]; other site 326297004055 putative active site [active] 326297004056 Peptidase M35 domain of peptidyl-Lys metalloendopeptidases; Region: M35_peptidyl-Lys; cd11306 326297004057 active site 326297004058 Zn binding site [ion binding]; other site 326297004059 Protein of unknown function (DUF3374); Region: DUF3374; pfam11854 326297004060 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 326297004061 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 326297004062 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 326297004063 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 326297004064 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 326297004065 heme-binding residues [chemical binding]; other site 326297004066 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 326297004067 heme-binding residues [chemical binding]; other site 326297004068 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 326297004069 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 326297004070 Tryptophan RNA-binding attenuator protein; Region: TrpBP; cl03437 326297004071 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 326297004072 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 326297004073 heme-binding residues [chemical binding]; other site 326297004074 Protein of unknown function (DUF3374); Region: DUF3374; pfam11854 326297004075 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 326297004076 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 326297004077 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 326297004078 FeoA domain; Region: FeoA; pfam04023 326297004079 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 326297004080 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 326297004081 G1 box; other site 326297004082 GTP/Mg2+ binding site [chemical binding]; other site 326297004083 Switch I region; other site 326297004084 G2 box; other site 326297004085 G3 box; other site 326297004086 Switch II region; other site 326297004087 G4 box; other site 326297004088 G5 box; other site 326297004089 Nucleoside recognition; Region: Gate; pfam07670 326297004090 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 326297004091 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 326297004092 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 326297004093 active site 326297004094 HIGH motif; other site 326297004095 nucleotide binding site [chemical binding]; other site 326297004096 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 326297004097 KMSKS motif; other site 326297004098 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 326297004099 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 326297004100 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 326297004101 active site 326297004102 dinuclear metal binding site [ion binding]; other site 326297004103 dimerization interface [polypeptide binding]; other site 326297004104 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 326297004105 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 326297004106 putative active site [active] 326297004107 putative metal binding site [ion binding]; other site 326297004108 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 326297004109 substrate binding site [chemical binding]; other site 326297004110 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 326297004111 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 326297004112 active site 326297004113 HIGH motif; other site 326297004114 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 326297004115 KMSKS motif; other site 326297004116 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 326297004117 tRNA binding surface [nucleotide binding]; other site 326297004118 anticodon binding site; other site 326297004119 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 326297004120 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 326297004121 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 326297004122 homodimer interface [polypeptide binding]; other site 326297004123 NADP binding site [chemical binding]; other site 326297004124 substrate binding site [chemical binding]; other site 326297004125 trigger factor; Provisional; Region: tig; PRK01490 326297004126 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 326297004127 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 326297004128 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 326297004129 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 326297004130 oligomer interface [polypeptide binding]; other site 326297004131 active site residues [active] 326297004132 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 326297004133 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 326297004134 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 326297004135 Walker A motif; other site 326297004136 ATP binding site [chemical binding]; other site 326297004137 Walker B motif; other site 326297004138 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 326297004139 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 326297004140 Found in ATP-dependent protease La (LON); Region: LON; smart00464 326297004141 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 326297004142 Walker A motif; other site 326297004143 ATP binding site [chemical binding]; other site 326297004144 Walker B motif; other site 326297004145 arginine finger; other site 326297004146 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 326297004147 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 326297004148 IHF - DNA interface [nucleotide binding]; other site 326297004149 IHF dimer interface [polypeptide binding]; other site 326297004150 periplasmic folding chaperone; Provisional; Region: PRK10788 326297004151 SurA N-terminal domain; Region: SurA_N_3; cl07813 326297004152 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 326297004153 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 326297004154 ligand binding site [chemical binding]; other site 326297004155 active site 326297004156 UGI interface [polypeptide binding]; other site 326297004157 catalytic site [active] 326297004158 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 326297004159 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 326297004160 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 326297004161 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 326297004162 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 326297004163 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 326297004164 Walker A/P-loop; other site 326297004165 ATP binding site [chemical binding]; other site 326297004166 Q-loop/lid; other site 326297004167 ABC transporter signature motif; other site 326297004168 Walker B; other site 326297004169 D-loop; other site 326297004170 H-loop/switch region; other site 326297004171 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 326297004172 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 326297004173 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 326297004174 Walker A/P-loop; other site 326297004175 ATP binding site [chemical binding]; other site 326297004176 Q-loop/lid; other site 326297004177 ABC transporter signature motif; other site 326297004178 Walker B; other site 326297004179 D-loop; other site 326297004180 H-loop/switch region; other site 326297004181 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 326297004182 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 326297004183 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 326297004184 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 326297004185 dimer interface [polypeptide binding]; other site 326297004186 conserved gate region; other site 326297004187 putative PBP binding loops; other site 326297004188 ABC-ATPase subunit interface; other site 326297004189 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 326297004190 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 326297004191 dimer interface [polypeptide binding]; other site 326297004192 conserved gate region; other site 326297004193 putative PBP binding loops; other site 326297004194 ABC-ATPase subunit interface; other site 326297004195 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 326297004196 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 326297004197 peptide binding site [polypeptide binding]; other site 326297004198 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 326297004199 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 326297004200 Walker A motif; other site 326297004201 ATP binding site [chemical binding]; other site 326297004202 Walker B motif; other site 326297004203 arginine finger; other site 326297004204 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 326297004205 phage shock protein A; Region: phageshock_pspA; TIGR02977 326297004206 phage shock protein B; Provisional; Region: pspB; PRK09458 326297004207 PspC domain; Region: PspC; cl00864 326297004208 phage shock protein C; Region: phageshock_pspC; TIGR02978 326297004209 YcjX-like family, DUF463; Region: DUF463; pfam04317 326297004210 hypothetical protein; Provisional; Region: PRK05415 326297004211 Domain of unknown function (DUF697); Region: DUF697; pfam05128 326297004212 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 326297004213 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 326297004214 homodimer interface [polypeptide binding]; other site 326297004215 substrate-cofactor binding pocket; other site 326297004216 pyridoxal 5'-phosphate binding site [chemical binding]; other site 326297004217 catalytic residue [active] 326297004218 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 326297004219 Helix-hairpin-helix motif; Region: HHH; pfam00633 326297004220 Late competence development protein ComFB; Region: ComFB; pfam10719 326297004221 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 326297004222 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 326297004223 putative active site [active] 326297004224 Zn binding site [ion binding]; other site 326297004225 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 326297004226 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 326297004227 hypothetical protein; Provisional; Region: PRK10621 326297004228 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 326297004229 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 326297004230 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 326297004231 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 326297004232 DNA polymerase II; Reviewed; Region: PRK05762 326297004233 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 326297004234 active site 326297004235 catalytic site [active] 326297004236 substrate binding site [chemical binding]; other site 326297004237 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 326297004238 active site 326297004239 metal-binding site 326297004240 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 326297004241 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 326297004242 trimer interface [polypeptide binding]; other site 326297004243 eyelet of channel; other site 326297004244 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 326297004245 N-terminal plug; other site 326297004246 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 326297004247 ligand-binding site [chemical binding]; other site 326297004248 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 326297004249 TPR motif; other site 326297004250 Tetratricopeptide repeat; Region: TPR_16; pfam13432 326297004251 binding surface 326297004252 TPR repeat; Region: TPR_11; pfam13414 326297004253 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 326297004254 binding surface 326297004255 TPR motif; other site 326297004256 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 326297004257 Putative 2OG-Fe(II) oxygenase; Region: 2OG-FeII_Oxy_5; pfam13759 326297004258 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 326297004259 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 326297004260 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 326297004261 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 326297004262 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 326297004263 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 326297004264 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 326297004265 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 326297004266 TPR motif; other site 326297004267 binding surface 326297004268 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 326297004269 binding surface 326297004270 TPR motif; other site 326297004271 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297004272 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297004273 active site 326297004274 I-site; other site 326297004275 metal binding site [ion binding]; metal-binding site 326297004276 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 326297004277 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 326297004278 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 326297004279 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 326297004280 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 326297004281 RNA binding surface [nucleotide binding]; other site 326297004282 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 326297004283 hypothetical protein; Provisional; Region: PRK10621 326297004284 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 326297004285 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 326297004286 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 326297004287 active site 326297004288 metal binding site [ion binding]; metal-binding site 326297004289 DNA binding site [nucleotide binding] 326297004290 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 326297004291 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 326297004292 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 326297004293 Walker A/P-loop; other site 326297004294 ATP binding site [chemical binding]; other site 326297004295 Q-loop/lid; other site 326297004296 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 326297004297 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 326297004298 ABC transporter signature motif; other site 326297004299 Walker B; other site 326297004300 D-loop; other site 326297004301 H-loop/switch region; other site 326297004302 putative peptidase; Provisional; Region: PRK11649 326297004303 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 326297004304 Peptidase family M23; Region: Peptidase_M23; pfam01551 326297004305 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 326297004306 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 326297004307 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 326297004308 DEAD-like helicases superfamily; Region: DEXDc; smart00487 326297004309 ATP binding site [chemical binding]; other site 326297004310 Mg++ binding site [ion binding]; other site 326297004311 motif III; other site 326297004312 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 326297004313 nucleotide binding region [chemical binding]; other site 326297004314 ATP-binding site [chemical binding]; other site 326297004315 hypothetical protein; Provisional; Region: PRK10279 326297004316 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 326297004317 active site 326297004318 nucleophile elbow; other site 326297004319 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 326297004320 ATP cone domain; Region: ATP-cone; pfam03477 326297004321 Class III ribonucleotide reductase; Region: RNR_III; cd01675 326297004322 effector binding site; other site 326297004323 active site 326297004324 Zn binding site [ion binding]; other site 326297004325 glycine loop; other site 326297004326 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; PRK11121 326297004327 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 326297004328 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 326297004329 dimerization interface [polypeptide binding]; other site 326297004330 active site 326297004331 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 326297004332 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 326297004333 Carbon starvation protein CstA; Region: CstA; pfam02554 326297004334 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 326297004335 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 326297004336 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297004337 active site 326297004338 phosphorylation site [posttranslational modification] 326297004339 intermolecular recognition site; other site 326297004340 dimerization interface [polypeptide binding]; other site 326297004341 LytTr DNA-binding domain; Region: LytTR; pfam04397 326297004342 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 326297004343 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 326297004344 GAF domain; Region: GAF; pfam01590 326297004345 Histidine kinase; Region: His_kinase; pfam06580 326297004346 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 326297004347 ATP binding site [chemical binding]; other site 326297004348 Mg2+ binding site [ion binding]; other site 326297004349 G-X-G motif; other site 326297004350 Protein of unknown function (DUF2492); Region: DUF2492; pfam10678 326297004351 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 326297004352 ParA-like protein; Provisional; Region: PHA02518 326297004353 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 326297004354 P-loop; other site 326297004355 Magnesium ion binding site [ion binding]; other site 326297004356 PilZ domain; Region: PilZ; pfam07238 326297004357 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 326297004358 NnrS protein; Region: NnrS; pfam05940 326297004359 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 326297004360 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 326297004361 active site 326297004362 dimerization interface [polypeptide binding]; other site 326297004363 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 326297004364 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 326297004365 serine O-acetyltransferase; Region: cysE; TIGR01172 326297004366 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 326297004367 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 326297004368 trimer interface [polypeptide binding]; other site 326297004369 active site 326297004370 substrate binding site [chemical binding]; other site 326297004371 CoA binding site [chemical binding]; other site 326297004372 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 326297004373 Rrf2 family protein; Region: rrf2_super; TIGR00738 326297004374 cysteine desulfurase; Provisional; Region: PRK14012 326297004375 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 326297004376 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 326297004377 catalytic residue [active] 326297004378 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 326297004379 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 326297004380 trimerization site [polypeptide binding]; other site 326297004381 active site 326297004382 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 326297004383 co-chaperone HscB; Provisional; Region: hscB; PRK05014 326297004384 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 326297004385 HSP70 interaction site [polypeptide binding]; other site 326297004386 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 326297004387 chaperone protein HscA; Provisional; Region: hscA; PRK05183 326297004388 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 326297004389 nucleotide binding site [chemical binding]; other site 326297004390 putative NEF/HSP70 interaction site [polypeptide binding]; other site 326297004391 SBD interface [polypeptide binding]; other site 326297004392 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 326297004393 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 326297004394 catalytic loop [active] 326297004395 iron binding site [ion binding]; other site 326297004396 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 326297004397 ATP-grasp domain; Region: ATP-grasp_4; cl17255 326297004398 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 326297004399 active site 326297004400 multimer interface [polypeptide binding]; other site 326297004401 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; pfam01258 326297004402 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 326297004403 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 326297004404 FMN binding site [chemical binding]; other site 326297004405 active site 326297004406 catalytic residues [active] 326297004407 substrate binding site [chemical binding]; other site 326297004408 hypothetical protein; Provisional; Region: PRK05409 326297004409 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 326297004410 Protein of unknown function (DUF454); Region: DUF454; cl01063 326297004411 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 326297004412 active site 326297004413 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14949 326297004414 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 326297004415 Walker A motif; other site 326297004416 ATP binding site [chemical binding]; other site 326297004417 Walker B motif; other site 326297004418 arginine finger; other site 326297004419 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 326297004420 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 326297004421 hypothetical protein; Validated; Region: PRK00153 326297004422 recombination protein RecR; Reviewed; Region: recR; PRK00076 326297004423 RecR protein; Region: RecR; pfam02132 326297004424 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 326297004425 putative active site [active] 326297004426 putative metal-binding site [ion binding]; other site 326297004427 tetramer interface [polypeptide binding]; other site 326297004428 heat shock protein 90; Provisional; Region: PRK05218 326297004429 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 326297004430 ATP binding site [chemical binding]; other site 326297004431 Mg2+ binding site [ion binding]; other site 326297004432 G-X-G motif; other site 326297004433 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 326297004434 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 326297004435 adenylate kinase; Reviewed; Region: adk; PRK00279 326297004436 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 326297004437 AMP-binding site [chemical binding]; other site 326297004438 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 326297004439 ferrochelatase; Reviewed; Region: hemH; PRK00035 326297004440 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 326297004441 C-terminal domain interface [polypeptide binding]; other site 326297004442 active site 326297004443 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 326297004444 active site 326297004445 N-terminal domain interface [polypeptide binding]; other site 326297004446 inosine/guanosine kinase; Provisional; Region: PRK15074 326297004447 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 326297004448 substrate binding site [chemical binding]; other site 326297004449 ATP binding site [chemical binding]; other site 326297004450 Transposase IS200 like; Region: Y1_Tnp; pfam01797 326297004451 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 326297004452 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 326297004453 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 326297004454 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 326297004455 succinylarginine dihydrolase; Provisional; Region: PRK13281 326297004456 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 326297004457 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 326297004458 active site 326297004459 interdomain interaction site; other site 326297004460 putative metal-binding site [ion binding]; other site 326297004461 nucleotide binding site [chemical binding]; other site 326297004462 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 326297004463 domain I; other site 326297004464 DNA binding groove [nucleotide binding] 326297004465 phosphate binding site [ion binding]; other site 326297004466 domain II; other site 326297004467 domain III; other site 326297004468 nucleotide binding site [chemical binding]; other site 326297004469 catalytic site [active] 326297004470 domain IV; other site 326297004471 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 326297004472 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 326297004473 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 326297004474 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 326297004475 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 326297004476 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297004477 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 326297004478 substrate binding site [chemical binding]; other site 326297004479 dimerization interface [polypeptide binding]; other site 326297004480 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 326297004481 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 326297004482 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 326297004483 beta-hexosaminidase; Provisional; Region: PRK05337 326297004484 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 326297004485 hypothetical protein; Provisional; Region: PRK04940 326297004486 acylphosphatase; Provisional; Region: PRK14429 326297004487 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 326297004488 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 326297004489 transcription-repair coupling factor; Provisional; Region: PRK10689 326297004490 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 326297004491 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 326297004492 ATP binding site [chemical binding]; other site 326297004493 putative Mg++ binding site [ion binding]; other site 326297004494 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 326297004495 nucleotide binding region [chemical binding]; other site 326297004496 ATP-binding site [chemical binding]; other site 326297004497 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 326297004498 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 326297004499 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 326297004500 FtsX-like permease family; Region: FtsX; pfam02687 326297004501 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 326297004502 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 326297004503 Walker A/P-loop; other site 326297004504 ATP binding site [chemical binding]; other site 326297004505 Q-loop/lid; other site 326297004506 ABC transporter signature motif; other site 326297004507 Walker B; other site 326297004508 D-loop; other site 326297004509 H-loop/switch region; other site 326297004510 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 326297004511 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 326297004512 FtsX-like permease family; Region: FtsX; pfam02687 326297004513 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 326297004514 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 326297004515 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 326297004516 Competence protein; Region: Competence; pfam03772 326297004517 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 326297004518 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 326297004519 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 326297004520 Walker A/P-loop; other site 326297004521 ATP binding site [chemical binding]; other site 326297004522 Q-loop/lid; other site 326297004523 ABC transporter signature motif; other site 326297004524 Walker B; other site 326297004525 D-loop; other site 326297004526 H-loop/switch region; other site 326297004527 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 326297004528 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 326297004529 Uncharacterized conserved protein [Function unknown]; Region: COG2835 326297004530 Uncharacterized conserved protein [Function unknown]; Region: COG2128 326297004531 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 326297004532 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 326297004533 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 326297004534 Coenzyme A binding pocket [chemical binding]; other site 326297004535 YcxB-like protein; Region: YcxB; pfam14317 326297004536 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 326297004537 Beta-lactamase; Region: Beta-lactamase; pfam00144 326297004538 integron integrase; Region: integrase_gron; TIGR02249 326297004539 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 326297004540 Int/Topo IB signature motif; other site 326297004541 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 326297004542 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 326297004543 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 326297004544 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 326297004545 active site 326297004546 catalytic residues [active] 326297004547 metal binding site [ion binding]; metal-binding site 326297004548 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 326297004549 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 326297004550 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 326297004551 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 326297004552 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 326297004553 carboxyltransferase (CT) interaction site; other site 326297004554 biotinylation site [posttranslational modification]; other site 326297004555 enoyl-CoA hydratase; Provisional; Region: PRK05995 326297004556 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 326297004557 substrate binding site [chemical binding]; other site 326297004558 oxyanion hole (OAH) forming residues; other site 326297004559 trimer interface [polypeptide binding]; other site 326297004560 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 326297004561 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 326297004562 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 326297004563 isovaleryl-CoA dehydrogenase; Region: PLN02519 326297004564 substrate binding site [chemical binding]; other site 326297004565 FAD binding site [chemical binding]; other site 326297004566 catalytic base [active] 326297004567 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 326297004568 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 326297004569 DNA binding residues [nucleotide binding] 326297004570 putative dimer interface [polypeptide binding]; other site 326297004571 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 326297004572 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 326297004573 acyl-activating enzyme (AAE) consensus motif; other site 326297004574 AMP binding site [chemical binding]; other site 326297004575 active site 326297004576 CoA binding site [chemical binding]; other site 326297004577 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 326297004578 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 326297004579 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 326297004580 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 326297004581 UbiA prenyltransferase family; Region: UbiA; pfam01040 326297004582 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 326297004583 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 326297004584 NAD(P) binding site [chemical binding]; other site 326297004585 active site 326297004586 acyl-CoA thioesterase II; Provisional; Region: PRK10526 326297004587 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 326297004588 active site 326297004589 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 326297004590 catalytic triad [active] 326297004591 dimer interface [polypeptide binding]; other site 326297004592 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 326297004593 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 326297004594 outer membrane protein W; Provisional; Region: PRK10959 326297004595 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 326297004596 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 326297004597 NAD(P) binding site [chemical binding]; other site 326297004598 active site 326297004599 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 326297004600 homoserine O-succinyltransferase; Provisional; Region: PRK05368 326297004601 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 326297004602 proposed active site lysine [active] 326297004603 conserved cys residue [active] 326297004604 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 326297004605 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 326297004606 dimer interface [polypeptide binding]; other site 326297004607 active site 326297004608 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 326297004609 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 326297004610 tetrameric interface [polypeptide binding]; other site 326297004611 NAD binding site [chemical binding]; other site 326297004612 catalytic residues [active] 326297004613 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 326297004614 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 326297004615 active site 326297004616 enoyl-CoA hydratase; Provisional; Region: PRK09076 326297004617 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 326297004618 substrate binding site [chemical binding]; other site 326297004619 oxyanion hole (OAH) forming residues; other site 326297004620 trimer interface [polypeptide binding]; other site 326297004621 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 326297004622 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 326297004623 substrate binding site [chemical binding]; other site 326297004624 oxyanion hole (OAH) forming residues; other site 326297004625 trimer interface [polypeptide binding]; other site 326297004626 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 326297004627 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 326297004628 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 326297004629 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 326297004630 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 326297004631 NAD(P) binding site [chemical binding]; other site 326297004632 active site 326297004633 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 326297004634 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 326297004635 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 326297004636 trimer interface [polypeptide binding]; other site 326297004637 active site 326297004638 substrate binding site [chemical binding]; other site 326297004639 CoA binding site [chemical binding]; other site 326297004640 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 326297004641 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 326297004642 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 326297004643 Walker A/P-loop; other site 326297004644 ATP binding site [chemical binding]; other site 326297004645 Q-loop/lid; other site 326297004646 ABC transporter signature motif; other site 326297004647 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 326297004648 Walker B; other site 326297004649 D-loop; other site 326297004650 H-loop/switch region; other site 326297004651 ABC transporter; Region: ABC_tran_2; pfam12848 326297004652 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 326297004653 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 326297004654 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 326297004655 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297004656 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 326297004657 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 326297004658 dimerization interface [polypeptide binding]; other site 326297004659 DoxX; Region: DoxX; pfam07681 326297004660 Pirin-related protein [General function prediction only]; Region: COG1741 326297004661 Pirin; Region: Pirin; pfam02678 326297004662 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 326297004663 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 326297004664 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 326297004665 TrkA-N domain; Region: TrkA_N; pfam02254 326297004666 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 326297004667 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 326297004668 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 326297004669 N-terminal plug; other site 326297004670 ligand-binding site [chemical binding]; other site 326297004671 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 326297004672 active site 326297004673 catalytic residues [active] 326297004674 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 326297004675 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 326297004676 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 326297004677 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 326297004678 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 326297004679 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 326297004680 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 326297004681 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 326297004682 Transcriptional regulators [Transcription]; Region: PurR; COG1609 326297004683 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 326297004684 DNA binding site [nucleotide binding] 326297004685 domain linker motif; other site 326297004686 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 326297004687 dimerization interface (closed form) [polypeptide binding]; other site 326297004688 ligand binding site [chemical binding]; other site 326297004689 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 326297004690 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 326297004691 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 326297004692 beta-galactosidase; Region: BGL; TIGR03356 326297004693 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 326297004694 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 326297004695 putative substrate translocation pore; other site 326297004696 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 326297004697 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 326297004698 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 326297004699 fructokinase; Reviewed; Region: PRK09557 326297004700 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 326297004701 nucleotide binding site [chemical binding]; other site 326297004702 EamA-like transporter family; Region: EamA; pfam00892 326297004703 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 326297004704 EamA-like transporter family; Region: EamA; pfam00892 326297004705 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 326297004706 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 326297004707 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 326297004708 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 326297004709 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 326297004710 conserved gate region; other site 326297004711 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 326297004712 ABC-ATPase subunit interface; other site 326297004713 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 326297004714 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 326297004715 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 326297004716 dimer interface [polypeptide binding]; other site 326297004717 conserved gate region; other site 326297004718 putative PBP binding loops; other site 326297004719 ABC-ATPase subunit interface; other site 326297004720 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 326297004721 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 326297004722 Walker A/P-loop; other site 326297004723 ATP binding site [chemical binding]; other site 326297004724 Q-loop/lid; other site 326297004725 ABC transporter signature motif; other site 326297004726 Walker B; other site 326297004727 D-loop; other site 326297004728 H-loop/switch region; other site 326297004729 transcriptional regulator PhoU; Provisional; Region: PRK11115 326297004730 PhoU domain; Region: PhoU; pfam01895 326297004731 PhoU domain; Region: PhoU; pfam01895 326297004732 Protein of unknown function (DUF502); Region: DUF502; pfam04367 326297004733 Uncharacterized conserved protein [Function unknown]; Region: COG3791 326297004734 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_4; cd08897 326297004735 putative hydrophobic ligand binding site [chemical binding]; other site 326297004736 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 326297004737 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 326297004738 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 326297004739 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 326297004740 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 326297004741 Walker A motif; other site 326297004742 ATP binding site [chemical binding]; other site 326297004743 Walker B motif; other site 326297004744 arginine finger; other site 326297004745 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 326297004746 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 326297004747 Protein export membrane protein; Region: SecD_SecF; cl14618 326297004748 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 326297004749 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 326297004750 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 326297004751 HlyD family secretion protein; Region: HlyD_3; pfam13437 326297004752 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 326297004753 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 326297004754 dimer interface [polypeptide binding]; other site 326297004755 active site 326297004756 citrylCoA binding site [chemical binding]; other site 326297004757 NADH binding [chemical binding]; other site 326297004758 cationic pore residues; other site 326297004759 oxalacetate/citrate binding site [chemical binding]; other site 326297004760 coenzyme A binding site [chemical binding]; other site 326297004761 catalytic triad [active] 326297004762 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 326297004763 Iron-sulfur protein interface; other site 326297004764 proximal quinone binding site [chemical binding]; other site 326297004765 SdhD (CybS) interface [polypeptide binding]; other site 326297004766 proximal heme binding site [chemical binding]; other site 326297004767 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 326297004768 SdhC subunit interface [polypeptide binding]; other site 326297004769 proximal heme binding site [chemical binding]; other site 326297004770 cardiolipin binding site; other site 326297004771 Iron-sulfur protein interface; other site 326297004772 proximal quinone binding site [chemical binding]; other site 326297004773 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 326297004774 L-aspartate oxidase; Provisional; Region: PRK06175 326297004775 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 326297004776 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 326297004777 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 326297004778 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 326297004779 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 326297004780 TPP-binding site [chemical binding]; other site 326297004781 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 326297004782 PYR/PP interface [polypeptide binding]; other site 326297004783 dimer interface [polypeptide binding]; other site 326297004784 TPP binding site [chemical binding]; other site 326297004785 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 326297004786 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 326297004787 E3 interaction surface; other site 326297004788 lipoyl attachment site [posttranslational modification]; other site 326297004789 e3 binding domain; Region: E3_binding; pfam02817 326297004790 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 326297004791 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 326297004792 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 326297004793 CoA-ligase; Region: Ligase_CoA; pfam00549 326297004794 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 326297004795 CoA binding domain; Region: CoA_binding; pfam02629 326297004796 CoA-ligase; Region: Ligase_CoA; pfam00549 326297004797 Predicted permeases [General function prediction only]; Region: COG0679 326297004798 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 326297004799 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 326297004800 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 326297004801 ferric uptake regulator; Provisional; Region: fur; PRK09462 326297004802 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 326297004803 metal binding site 2 [ion binding]; metal-binding site 326297004804 putative DNA binding helix; other site 326297004805 metal binding site 1 [ion binding]; metal-binding site 326297004806 dimer interface [polypeptide binding]; other site 326297004807 structural Zn2+ binding site [ion binding]; other site 326297004808 NAD-dependent deacetylase; Provisional; Region: PRK00481 326297004809 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 326297004810 NAD+ binding site [chemical binding]; other site 326297004811 substrate binding site [chemical binding]; other site 326297004812 Zn binding site [ion binding]; other site 326297004813 AAA domain; Region: AAA_33; pfam13671 326297004814 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 326297004815 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 326297004816 inhibitor-cofactor binding pocket; inhibition site 326297004817 pyridoxal 5'-phosphate binding site [chemical binding]; other site 326297004818 catalytic residue [active] 326297004819 biotin synthase; Provisional; Region: PRK15108 326297004820 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 326297004821 FeS/SAM binding site; other site 326297004822 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 326297004823 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 326297004824 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 326297004825 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 326297004826 catalytic residue [active] 326297004827 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 326297004828 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 326297004829 S-adenosylmethionine binding site [chemical binding]; other site 326297004830 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 326297004831 AAA domain; Region: AAA_26; pfam13500 326297004832 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 326297004833 active site pocket [active] 326297004834 oxyanion hole [active] 326297004835 catalytic triad [active] 326297004836 active site nucleophile [active] 326297004837 heat shock protein HtpX; Provisional; Region: PRK05457 326297004838 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 326297004839 TPR repeat; Region: TPR_11; pfam13414 326297004840 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 326297004841 binding surface 326297004842 TPR motif; other site 326297004843 Tetratricopeptide repeat; Region: TPR_16; pfam13432 326297004844 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 326297004845 TPR motif; other site 326297004846 binding surface 326297004847 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 326297004848 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 326297004849 DNA binding residues [nucleotide binding] 326297004850 dimerization interface [polypeptide binding]; other site 326297004851 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 326297004852 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 326297004853 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 326297004854 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 326297004855 nucleotide binding site/active site [active] 326297004856 HIT family signature motif; other site 326297004857 catalytic residue [active] 326297004858 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 326297004859 CoenzymeA binding site [chemical binding]; other site 326297004860 subunit interaction site [polypeptide binding]; other site 326297004861 PHB binding site; other site 326297004862 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 326297004863 CoenzymeA binding site [chemical binding]; other site 326297004864 subunit interaction site [polypeptide binding]; other site 326297004865 PHB binding site; other site 326297004866 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 326297004867 putative dimer interface [polypeptide binding]; other site 326297004868 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 326297004869 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 326297004870 N-terminal plug; other site 326297004871 ligand-binding site [chemical binding]; other site 326297004872 Domain of unknown function DUF77; Region: DUF77; cl00307 326297004873 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 326297004874 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; cl17270 326297004875 Phosphotransferase enzyme family; Region: APH; pfam01636 326297004876 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; cl17270 326297004877 substrate binding site [chemical binding]; other site 326297004878 aspartyl/glutamyl-tRNA amidotransferase subunit C-like protein; Provisional; Region: PRK12821 326297004879 DoxX; Region: DoxX; pfam07681 326297004880 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 326297004881 putative FMN binding site [chemical binding]; other site 326297004882 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 326297004883 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 326297004884 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 326297004885 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 326297004886 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 326297004887 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 326297004888 outer membrane porin, OprD family; Region: OprD; pfam03573 326297004889 Amidohydrolase; Region: Amidohydro_2; pfam04909 326297004890 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 326297004891 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 326297004892 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 326297004893 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 326297004894 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 326297004895 Walker A/P-loop; other site 326297004896 ATP binding site [chemical binding]; other site 326297004897 Q-loop/lid; other site 326297004898 ABC transporter signature motif; other site 326297004899 Walker B; other site 326297004900 D-loop; other site 326297004901 H-loop/switch region; other site 326297004902 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 326297004903 HlyD family secretion protein; Region: HlyD_3; pfam13437 326297004904 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 326297004905 HlyD family secretion protein; Region: HlyD_3; pfam13437 326297004906 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 326297004907 HlyD family secretion protein; Region: HlyD_3; pfam13437 326297004908 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 326297004909 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 326297004910 FtsX-like permease family; Region: FtsX; pfam02687 326297004911 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 326297004912 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 326297004913 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 326297004914 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 326297004915 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 326297004916 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 326297004917 generic binding surface I; other site 326297004918 generic binding surface II; other site 326297004919 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 326297004920 putative active site [active] 326297004921 putative catalytic site [active] 326297004922 putative Mg binding site IVb [ion binding]; other site 326297004923 putative phosphate binding site [ion binding]; other site 326297004924 putative DNA binding site [nucleotide binding]; other site 326297004925 putative Mg binding site IVa [ion binding]; other site 326297004926 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 326297004927 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 326297004928 arsenical-resistance protein; Region: acr3; TIGR00832 326297004929 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 326297004930 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 326297004931 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 326297004932 aminotransferase; Validated; Region: PRK07046 326297004933 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 326297004934 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 326297004935 catalytic residue [active] 326297004936 Protein of unknown function (DUF3083); Region: DUF3083; pfam11281 326297004937 Protein of unknown function, DUF481; Region: DUF481; pfam04338 326297004938 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 326297004939 active site 326297004940 catalytic triad [active] 326297004941 oxyanion hole [active] 326297004942 switch loop; other site 326297004943 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 326297004944 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 326297004945 Walker A/P-loop; other site 326297004946 ATP binding site [chemical binding]; other site 326297004947 Q-loop/lid; other site 326297004948 ABC transporter signature motif; other site 326297004949 Walker B; other site 326297004950 D-loop; other site 326297004951 H-loop/switch region; other site 326297004952 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 326297004953 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 326297004954 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 326297004955 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 326297004956 NAD(P) binding site [chemical binding]; other site 326297004957 active site 326297004958 D-erythro-7,8-dihydroneopterin triphosphate 2'-epimerase; Provisional; Region: folX; PRK11245 326297004959 active site 326297004960 Domain of unknown function DUF20; Region: UPF0118; pfam01594 326297004961 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 326297004962 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 326297004963 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 326297004964 S-adenosylmethionine binding site [chemical binding]; other site 326297004965 phosphate acetyltransferase; Reviewed; Region: PRK05632 326297004966 DRTGG domain; Region: DRTGG; pfam07085 326297004967 phosphate acetyltransferase; Region: pta; TIGR00651 326297004968 propionate/acetate kinase; Provisional; Region: PRK12379 326297004969 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 326297004970 Protein of unknown function, DUF412; Region: DUF412; pfam04217 326297004971 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 326297004972 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 326297004973 FeS/SAM binding site; other site 326297004974 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 326297004975 Pyruvate formate lyase 1; Region: PFL1; cd01678 326297004976 coenzyme A binding site [chemical binding]; other site 326297004977 active site 326297004978 catalytic residues [active] 326297004979 glycine loop; other site 326297004980 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 326297004981 formate transporter FocA; Region: formate_focA; TIGR04060 326297004982 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; cd02205 326297004983 FOG: CBS domain [General function prediction only]; Region: COG0517 326297004984 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 326297004985 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297004986 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 326297004987 putative dimerization interface [polypeptide binding]; other site 326297004988 hypothetical protein; Provisional; Region: PRK11588 326297004989 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 326297004990 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 326297004991 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 326297004992 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 326297004993 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 326297004994 gating phenylalanine in ion channel; other site 326297004995 O-methyltransferase; Region: Methyltransf_2; pfam00891 326297004996 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 326297004997 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 326297004998 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 326297004999 catalytic residue [active] 326297005000 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 326297005001 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 326297005002 active site residue [active] 326297005003 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 326297005004 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 326297005005 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 326297005006 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 326297005007 dimer interface [polypeptide binding]; other site 326297005008 pyridoxal 5'-phosphate binding site [chemical binding]; other site 326297005009 catalytic residue [active] 326297005010 Rv0623-like transcription factor; Region: PSK_trans_fac; cl01834 326297005011 RDD family; Region: RDD; pfam06271 326297005012 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 326297005013 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 326297005014 dimer interface [polypeptide binding]; other site 326297005015 active site 326297005016 CoA binding pocket [chemical binding]; other site 326297005017 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 326297005018 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297005019 active site 326297005020 phosphorylation site [posttranslational modification] 326297005021 intermolecular recognition site; other site 326297005022 Response regulator receiver domain; Region: Response_reg; pfam00072 326297005023 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297005024 active site 326297005025 phosphorylation site [posttranslational modification] 326297005026 intermolecular recognition site; other site 326297005027 dimerization interface [polypeptide binding]; other site 326297005028 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297005029 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297005030 metal binding site [ion binding]; metal-binding site 326297005031 active site 326297005032 I-site; other site 326297005033 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 326297005034 putative ligand binding site [chemical binding]; other site 326297005035 putative sulfate transport protein CysZ; Validated; Region: PRK04949 326297005036 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 326297005037 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 326297005038 Walker A/P-loop; other site 326297005039 ATP binding site [chemical binding]; other site 326297005040 Q-loop/lid; other site 326297005041 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 326297005042 ABC transporter signature motif; other site 326297005043 Walker B; other site 326297005044 D-loop; other site 326297005045 H-loop/switch region; other site 326297005046 cell division protein ZipA; Provisional; Region: PRK03427 326297005047 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 326297005048 FtsZ protein binding site [polypeptide binding]; other site 326297005049 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 326297005050 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 326297005051 nucleotide binding pocket [chemical binding]; other site 326297005052 K-X-D-G motif; other site 326297005053 catalytic site [active] 326297005054 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 326297005055 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 326297005056 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 326297005057 Dimer interface [polypeptide binding]; other site 326297005058 BRCT sequence motif; other site 326297005059 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 326297005060 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 326297005061 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 326297005062 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 326297005063 Zn2+ binding site [ion binding]; other site 326297005064 Mg2+ binding site [ion binding]; other site 326297005065 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 326297005066 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 326297005067 putative NAD(P) binding site [chemical binding]; other site 326297005068 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 326297005069 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 326297005070 catalytic residues [active] 326297005071 hinge region; other site 326297005072 alpha helical domain; other site 326297005073 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 326297005074 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 326297005075 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 326297005076 Na binding site [ion binding]; other site 326297005077 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 326297005078 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 326297005079 ligand binding site [chemical binding]; other site 326297005080 flexible hinge region; other site 326297005081 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 326297005082 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 326297005083 metal binding triad; other site 326297005084 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 326297005085 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 326297005086 active site 326297005087 catalytic site [active] 326297005088 substrate binding site [chemical binding]; other site 326297005089 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 326297005090 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 326297005091 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 326297005092 dimer interface [polypeptide binding]; other site 326297005093 active site 326297005094 CoA binding pocket [chemical binding]; other site 326297005095 Transcriptional regulators [Transcription]; Region: GntR; COG1802 326297005096 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 326297005097 DNA-binding site [nucleotide binding]; DNA binding site 326297005098 FCD domain; Region: FCD; pfam07729 326297005099 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 326297005100 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 326297005101 dimer interface [polypeptide binding]; other site 326297005102 NADP binding site [chemical binding]; other site 326297005103 catalytic residues [active] 326297005104 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 326297005105 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 326297005106 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 326297005107 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 326297005108 inhibitor site; inhibition site 326297005109 active site 326297005110 dimer interface [polypeptide binding]; other site 326297005111 catalytic residue [active] 326297005112 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 326297005113 Proline racemase; Region: Pro_racemase; pfam05544 326297005114 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 326297005115 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 326297005116 hydroxyglutarate oxidase; Provisional; Region: PRK11728 326297005117 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 326297005118 proline aminopeptidase P II; Provisional; Region: PRK10879 326297005119 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 326297005120 active site 326297005121 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 326297005122 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 326297005123 active site 326297005124 motif I; other site 326297005125 motif II; other site 326297005126 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 326297005127 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 326297005128 Cl binding site [ion binding]; other site 326297005129 oligomer interface [polypeptide binding]; other site 326297005130 Protein of unknown function (DUF3135); Region: DUF3135; pfam11333 326297005131 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 326297005132 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 326297005133 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 326297005134 Zn2+ binding site [ion binding]; other site 326297005135 Mg2+ binding site [ion binding]; other site 326297005136 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 326297005137 sensor protein PhoQ; Provisional; Region: PRK10815 326297005138 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 326297005139 ATP binding site [chemical binding]; other site 326297005140 Mg2+ binding site [ion binding]; other site 326297005141 G-X-G motif; other site 326297005142 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 326297005143 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297005144 active site 326297005145 phosphorylation site [posttranslational modification] 326297005146 intermolecular recognition site; other site 326297005147 dimerization interface [polypeptide binding]; other site 326297005148 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 326297005149 DNA binding site [nucleotide binding] 326297005150 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 326297005151 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 326297005152 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 326297005153 Walker A/P-loop; other site 326297005154 ATP binding site [chemical binding]; other site 326297005155 Q-loop/lid; other site 326297005156 ABC transporter signature motif; other site 326297005157 Walker B; other site 326297005158 D-loop; other site 326297005159 H-loop/switch region; other site 326297005160 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 326297005161 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 326297005162 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 326297005163 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 326297005164 dimerization interface [polypeptide binding]; other site 326297005165 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 326297005166 dimer interface [polypeptide binding]; other site 326297005167 phosphorylation site [posttranslational modification] 326297005168 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 326297005169 ATP binding site [chemical binding]; other site 326297005170 Mg2+ binding site [ion binding]; other site 326297005171 G-X-G motif; other site 326297005172 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 326297005173 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297005174 active site 326297005175 phosphorylation site [posttranslational modification] 326297005176 intermolecular recognition site; other site 326297005177 dimerization interface [polypeptide binding]; other site 326297005178 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 326297005179 Walker A motif; other site 326297005180 ATP binding site [chemical binding]; other site 326297005181 Walker B motif; other site 326297005182 arginine finger; other site 326297005183 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 326297005184 LysE type translocator; Region: LysE; cl00565 326297005185 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 326297005186 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 326297005187 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 326297005188 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 326297005189 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 326297005190 homodimer interface [polypeptide binding]; other site 326297005191 NAD binding pocket [chemical binding]; other site 326297005192 ATP binding pocket [chemical binding]; other site 326297005193 Mg binding site [ion binding]; other site 326297005194 active-site loop [active] 326297005195 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 326297005196 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297005197 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297005198 metal binding site [ion binding]; metal-binding site 326297005199 active site 326297005200 I-site; other site 326297005201 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 326297005202 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 326297005203 Sulfatase; Region: Sulfatase; cl17466 326297005204 hypothetical protein; Provisional; Region: PRK13689 326297005205 Nucleoid-associated protein [General function prediction only]; Region: COG3081 326297005206 nucleoid-associated protein NdpA; Validated; Region: PRK00378 326297005207 Domain of unknown function (DUF4336); Region: DUF4336; pfam14234 326297005208 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 326297005209 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 326297005210 Peptidase family M23; Region: Peptidase_M23; pfam01551 326297005211 Transposase IS200 like; Region: Y1_Tnp; pfam01797 326297005212 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 326297005213 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 326297005214 Coenzyme A binding pocket [chemical binding]; other site 326297005215 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 326297005216 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 326297005217 active site 326297005218 metal binding site [ion binding]; metal-binding site 326297005219 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 326297005220 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 326297005221 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 326297005222 active site 326297005223 Zn binding site [ion binding]; other site 326297005224 hypothetical protein; Provisional; Region: PRK06156 326297005225 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 326297005226 active site 326297005227 metal binding site [ion binding]; metal-binding site 326297005228 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 326297005229 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 326297005230 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 326297005231 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 326297005232 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 326297005233 dimer interface [polypeptide binding]; other site 326297005234 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 326297005235 active site 326297005236 Fe binding site [ion binding]; other site 326297005237 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 326297005238 Transcriptional regulator [Transcription]; Region: LysR; COG0583 326297005239 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297005240 dimerization interface [polypeptide binding]; other site 326297005241 LysR substrate binding domain; Region: LysR_substrate; pfam03466 326297005242 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 326297005243 EVE domain; Region: EVE; cl00728 326297005244 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 326297005245 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 326297005246 membrane-bound complex binding site; other site 326297005247 hinge residues; other site 326297005248 hypothetical protein; Provisional; Region: PRK11770 326297005249 Domain of unknown function (DUF307); Region: DUF307; pfam03733 326297005250 Domain of unknown function (DUF307); Region: DUF307; pfam03733 326297005251 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 326297005252 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 326297005253 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 326297005254 catalytic residue [active] 326297005255 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 326297005256 Mechanosensitive ion channel; Region: MS_channel; pfam00924 326297005257 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 326297005258 mce related protein; Region: MCE; pfam02470 326297005259 mce related protein; Region: MCE; pfam02470 326297005260 mce related protein; Region: MCE; pfam02470 326297005261 mce related protein; Region: MCE; pfam02470 326297005262 mce related protein; Region: MCE; pfam02470 326297005263 mce related protein; Region: MCE; pfam02470 326297005264 mce related protein; Region: MCE; pfam02470 326297005265 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 326297005266 Paraquat-inducible protein A; Region: PqiA; pfam04403 326297005267 Paraquat-inducible protein A; Region: PqiA; pfam04403 326297005268 YebG protein; Region: YebG; pfam07130 326297005269 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 326297005270 GAF domain; Region: GAF_2; pfam13185 326297005271 ProP expression regulator; Provisional; Region: PRK04950 326297005272 ProQ/FINO family; Region: ProQ; smart00945 326297005273 putative RNA binding sites [nucleotide binding]; other site 326297005274 carboxy-terminal protease; Provisional; Region: PRK11186 326297005275 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 326297005276 protein binding site [polypeptide binding]; other site 326297005277 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 326297005278 Catalytic dyad [active] 326297005279 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 326297005280 aminopeptidase N; Provisional; Region: pepN; PRK14015 326297005281 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 326297005282 active site 326297005283 Zn binding site [ion binding]; other site 326297005284 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 326297005285 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 326297005286 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 326297005287 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 326297005288 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 326297005289 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 326297005290 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 326297005291 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 326297005292 quinone interaction residues [chemical binding]; other site 326297005293 active site 326297005294 catalytic residues [active] 326297005295 FMN binding site [chemical binding]; other site 326297005296 substrate binding site [chemical binding]; other site 326297005297 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 326297005298 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 326297005299 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 326297005300 C factor cell-cell signaling protein; Provisional; Region: PRK09009 326297005301 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 326297005302 NADP binding site [chemical binding]; other site 326297005303 homodimer interface [polypeptide binding]; other site 326297005304 active site 326297005305 DsrE/DsrF-like family; Region: DrsE; pfam02635 326297005306 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 326297005307 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 326297005308 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 326297005309 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 326297005310 S-adenosylmethionine binding site [chemical binding]; other site 326297005311 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 326297005312 ABC transporter ATPase component; Reviewed; Region: PRK11147 326297005313 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 326297005314 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 326297005315 ABC transporter; Region: ABC_tran_2; pfam12848 326297005316 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 326297005317 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 326297005318 ribosome modulation factor; Provisional; Region: PRK14563 326297005319 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 326297005320 active site 1 [active] 326297005321 dimer interface [polypeptide binding]; other site 326297005322 active site 2 [active] 326297005323 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 326297005324 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 326297005325 response regulator; Provisional; Region: PRK09483 326297005326 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297005327 active site 326297005328 phosphorylation site [posttranslational modification] 326297005329 intermolecular recognition site; other site 326297005330 dimerization interface [polypeptide binding]; other site 326297005331 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 326297005332 DNA binding residues [nucleotide binding] 326297005333 dimerization interface [polypeptide binding]; other site 326297005334 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 326297005335 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 326297005336 GIY-YIG motif/motif A; other site 326297005337 active site 326297005338 catalytic site [active] 326297005339 putative DNA binding site [nucleotide binding]; other site 326297005340 metal binding site [ion binding]; metal-binding site 326297005341 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 326297005342 Helix-hairpin-helix motif; Region: HHH; pfam00633 326297005343 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 326297005344 Nuclease-related domain; Region: NERD; pfam08378 326297005345 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 326297005346 IHF dimer interface [polypeptide binding]; other site 326297005347 IHF - DNA interface [nucleotide binding]; other site 326297005348 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 326297005349 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 326297005350 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 326297005351 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 326297005352 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 326297005353 Peptidase M15; Region: Peptidase_M15_3; cl01194 326297005354 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 326297005355 5S rRNA interface [nucleotide binding]; other site 326297005356 CTC domain interface [polypeptide binding]; other site 326297005357 L16 interface [polypeptide binding]; other site 326297005358 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 326297005359 Family of unknown function (DUF490); Region: DUF490; pfam04357 326297005360 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 326297005361 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 326297005362 Surface antigen; Region: Bac_surface_Ag; pfam01103 326297005363 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 326297005364 catalytic nucleophile [active] 326297005365 FOG: CBS domain [General function prediction only]; Region: COG0517 326297005366 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 326297005367 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 326297005368 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 326297005369 ATP binding site [chemical binding]; other site 326297005370 putative Mg++ binding site [ion binding]; other site 326297005371 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 326297005372 nucleotide binding region [chemical binding]; other site 326297005373 ATP-binding site [chemical binding]; other site 326297005374 Helicase associated domain (HA2); Region: HA2; pfam04408 326297005375 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 326297005376 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 326297005377 Periplasmic nitrate reductase protein NapE; Region: NapE; pfam06796 326297005378 NapD protein; Region: NapD; pfam03927 326297005379 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 326297005380 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 326297005381 [4Fe-4S] binding site [ion binding]; other site 326297005382 molybdopterin cofactor binding site; other site 326297005383 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 326297005384 molybdopterin cofactor binding site; other site 326297005385 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 326297005386 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 326297005387 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 326297005388 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 326297005389 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 326297005390 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 326297005391 NAD(P) binding site [chemical binding]; other site 326297005392 catalytic residues [active] 326297005393 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 326297005394 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 326297005395 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 326297005396 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 326297005397 inhibitor-cofactor binding pocket; inhibition site 326297005398 pyridoxal 5'-phosphate binding site [chemical binding]; other site 326297005399 catalytic residue [active] 326297005400 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 326297005401 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 326297005402 putative DNA binding site [nucleotide binding]; other site 326297005403 putative Zn2+ binding site [ion binding]; other site 326297005404 AsnC family; Region: AsnC_trans_reg; pfam01037 326297005405 Transcriptional regulator [Transcription]; Region: LysR; COG0583 326297005406 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297005407 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 326297005408 dimerization interface [polypeptide binding]; other site 326297005409 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 326297005410 active sites [active] 326297005411 tetramer interface [polypeptide binding]; other site 326297005412 urocanate hydratase; Provisional; Region: PRK05414 326297005413 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 326297005414 active site 326297005415 Int/Topo IB signature motif; other site 326297005416 DNA binding site [nucleotide binding] 326297005417 putative acetyltransferase; Provisional; Region: PRK03624 326297005418 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 326297005419 Coenzyme A binding pocket [chemical binding]; other site 326297005420 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 326297005421 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 326297005422 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 326297005423 Ligand binding site; other site 326297005424 oligomer interface; other site 326297005425 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 326297005426 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 326297005427 active site 326297005428 NAD binding site [chemical binding]; other site 326297005429 metal binding site [ion binding]; metal-binding site 326297005430 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 326297005431 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 326297005432 inhibitor-cofactor binding pocket; inhibition site 326297005433 pyridoxal 5'-phosphate binding site [chemical binding]; other site 326297005434 catalytic residue [active] 326297005435 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 326297005436 active site clefts [active] 326297005437 zinc binding site [ion binding]; other site 326297005438 dimer interface [polypeptide binding]; other site 326297005439 PBP superfamily domain; Region: PBP_like_2; cl17296 326297005440 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 326297005441 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 326297005442 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 326297005443 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 326297005444 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 326297005445 metal binding site [ion binding]; metal-binding site 326297005446 dimer interface [polypeptide binding]; other site 326297005447 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 326297005448 ArsC family; Region: ArsC; pfam03960 326297005449 putative catalytic residues [active] 326297005450 PTS system glucose-specific transporter subunit; Provisional; Region: PRK09439 326297005451 HPr interaction site; other site 326297005452 glycerol kinase (GK) interaction site [polypeptide binding]; other site 326297005453 active site 326297005454 phosphorylation site [posttranslational modification] 326297005455 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 326297005456 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 326297005457 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 326297005458 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 326297005459 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 326297005460 dimerization domain swap beta strand [polypeptide binding]; other site 326297005461 regulatory protein interface [polypeptide binding]; other site 326297005462 active site 326297005463 regulatory phosphorylation site [posttranslational modification]; other site 326297005464 Uncharacterized conserved protein [Function unknown]; Region: COG3603 326297005465 Family description; Region: ACT_7; pfam13840 326297005466 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 326297005467 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 326297005468 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 326297005469 dimerization interface [polypeptide binding]; other site 326297005470 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 326297005471 dimer interface [polypeptide binding]; other site 326297005472 putative CheW interface [polypeptide binding]; other site 326297005473 Protein of unknown function (DUF3334); Region: DUF3334; pfam11813 326297005474 Transcriptional regulators [Transcription]; Region: PurR; COG1609 326297005475 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 326297005476 DNA binding site [nucleotide binding] 326297005477 domain linker motif; other site 326297005478 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 326297005479 putative dimerization interface [polypeptide binding]; other site 326297005480 putative ligand binding site [chemical binding]; other site 326297005481 Glycoside hydrolase family 15, N-terminal domain; Region: GH15_N; cd07430 326297005482 Domain interface; other site 326297005483 glucan 1,4-alpha-glucosidase; Region: glucan_glucosid; TIGR01535 326297005484 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 326297005485 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 326297005486 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 326297005487 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 326297005488 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 326297005489 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 326297005490 active site 326297005491 catalytic site [active] 326297005492 Cyclomaltodextrinase, N-terminal; Region: Cyc-maltodext_N; pfam09087 326297005493 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_3; cd11340 326297005494 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 326297005495 Ca binding site [ion binding]; other site 326297005496 active site 326297005497 homodimer interface [polypeptide binding]; other site 326297005498 catalytic site [active] 326297005499 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 326297005500 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 326297005501 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 326297005502 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 326297005503 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 326297005504 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 326297005505 active site 326297005506 catalytic site [active] 326297005507 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 326297005508 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 326297005509 putative substrate translocation pore; other site 326297005510 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 326297005511 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 326297005512 S-adenosylmethionine binding site [chemical binding]; other site 326297005513 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 326297005514 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 326297005515 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 326297005516 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297005517 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297005518 metal binding site [ion binding]; metal-binding site 326297005519 active site 326297005520 I-site; other site 326297005521 hydrogenase nickel incorporation protein; Provisional; Region: hypA; PRK00564 326297005522 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 326297005523 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 326297005524 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 326297005525 dimerization interface [polypeptide binding]; other site 326297005526 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 326297005527 ATP binding site [chemical binding]; other site 326297005528 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 326297005529 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 326297005530 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypC; COG0298 326297005531 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 326297005532 G1 box; other site 326297005533 GTP/Mg2+ binding site [chemical binding]; other site 326297005534 G2 box; other site 326297005535 Switch I region; other site 326297005536 G3 box; other site 326297005537 Switch II region; other site 326297005538 G4 box; other site 326297005539 G5 box; other site 326297005540 Acylphosphatase; Region: Acylphosphatase; pfam00708 326297005541 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 326297005542 HypF finger; Region: zf-HYPF; pfam07503 326297005543 HypF finger; Region: zf-HYPF; pfam07503 326297005544 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 326297005545 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 326297005546 putative substrate-binding site; other site 326297005547 nickel binding site [ion binding]; other site 326297005548 Ni/Fe-hydrogenase, b-type cytochrome subunit; Region: CytB-hydogenase; TIGR02125 326297005549 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 326297005550 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 326297005551 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 326297005552 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 326297005553 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 326297005554 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 326297005555 catalytic residues [active] 326297005556 Domain of unknown function (DUF4266); Region: DUF4266; pfam14086 326297005557 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 326297005558 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 326297005559 ApbE family; Region: ApbE; pfam02424 326297005560 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 326297005561 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 326297005562 putative dimer interface [polypeptide binding]; other site 326297005563 putative anticodon binding site; other site 326297005564 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 326297005565 homodimer interface [polypeptide binding]; other site 326297005566 motif 1; other site 326297005567 motif 2; other site 326297005568 active site 326297005569 motif 3; other site 326297005570 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 326297005571 putative active site [active] 326297005572 putative CoA binding site [chemical binding]; other site 326297005573 nudix motif; other site 326297005574 metal binding site [ion binding]; metal-binding site 326297005575 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 326297005576 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 326297005577 chorismate binding enzyme; Region: Chorismate_bind; cl10555 326297005578 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 326297005579 Fumarase C-terminus; Region: Fumerase_C; pfam05683 326297005580 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 326297005581 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 326297005582 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 326297005583 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 326297005584 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 326297005585 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 326297005586 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 326297005587 Ligand binding site; other site 326297005588 DXD motif; other site 326297005589 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 326297005590 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 326297005591 putative catalytic cysteine [active] 326297005592 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 326297005593 putative active site [active] 326297005594 metal binding site [ion binding]; metal-binding site 326297005595 hypothetical protein; Provisional; Region: PRK11111 326297005596 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 326297005597 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 326297005598 Zn2+ binding site [ion binding]; other site 326297005599 Mg2+ binding site [ion binding]; other site 326297005600 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 326297005601 5'-nucleotidase; Provisional; Region: PRK03826 326297005602 aminotransferase AlaT; Validated; Region: PRK09265 326297005603 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 326297005604 pyridoxal 5'-phosphate binding site [chemical binding]; other site 326297005605 homodimer interface [polypeptide binding]; other site 326297005606 catalytic residue [active] 326297005607 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 326297005608 elongation factor P; Validated; Region: PRK00529 326297005609 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 326297005610 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 326297005611 RNA binding site [nucleotide binding]; other site 326297005612 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 326297005613 RNA binding site [nucleotide binding]; other site 326297005614 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 326297005615 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 326297005616 flavodoxin FldA; Validated; Region: PRK09267 326297005617 LexA regulated protein; Provisional; Region: PRK11675 326297005618 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 326297005619 acyl-CoA esterase; Provisional; Region: PRK10673 326297005620 PGAP1-like protein; Region: PGAP1; pfam07819 326297005621 replication initiation regulator SeqA; Provisional; Region: PRK11187 326297005622 phosphoglucomutase; Validated; Region: PRK07564 326297005623 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 326297005624 active site 326297005625 substrate binding site [chemical binding]; other site 326297005626 metal binding site [ion binding]; metal-binding site 326297005627 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 326297005628 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 326297005629 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 326297005630 putative active site [active] 326297005631 Zn binding site [ion binding]; other site 326297005632 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 326297005633 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 326297005634 tetramer interface [polypeptide binding]; other site 326297005635 TPP-binding site [chemical binding]; other site 326297005636 heterodimer interface [polypeptide binding]; other site 326297005637 phosphorylation loop region [posttranslational modification] 326297005638 3-methyl-2-oxobutanate dehydrogenase; Provisional; Region: PTZ00182 326297005639 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 326297005640 alpha subunit interface [polypeptide binding]; other site 326297005641 TPP binding site [chemical binding]; other site 326297005642 heterodimer interface [polypeptide binding]; other site 326297005643 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 326297005644 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 326297005645 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 326297005646 E3 interaction surface; other site 326297005647 lipoyl attachment site [posttranslational modification]; other site 326297005648 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 326297005649 E3 interaction surface; other site 326297005650 lipoyl attachment site [posttranslational modification]; other site 326297005651 e3 binding domain; Region: E3_binding; pfam02817 326297005652 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 326297005653 quinolinate synthetase; Provisional; Region: PRK09375 326297005654 Nitrate and nitrite sensing; Region: NIT; pfam08376 326297005655 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 326297005656 dimerization interface [polypeptide binding]; other site 326297005657 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 326297005658 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 326297005659 dimer interface [polypeptide binding]; other site 326297005660 putative CheW interface [polypeptide binding]; other site 326297005661 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 326297005662 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 326297005663 HlyD family secretion protein; Region: HlyD_3; pfam13437 326297005664 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 326297005665 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 326297005666 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 326297005667 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297005668 active site 326297005669 phosphorylation site [posttranslational modification] 326297005670 intermolecular recognition site; other site 326297005671 dimerization interface [polypeptide binding]; other site 326297005672 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 326297005673 DNA binding site [nucleotide binding] 326297005674 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 326297005675 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 326297005676 putative active site [active] 326297005677 Zn binding site [ion binding]; other site 326297005678 Protein of unknown function (DUF1178); Region: DUF1178; cl17833 326297005679 Protein of unknown function (DUF1315); Region: DUF1315; pfam07023 326297005680 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 326297005681 active site 326297005682 homodimer interface [polypeptide binding]; other site 326297005683 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 326297005684 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 326297005685 tandem repeat interface [polypeptide binding]; other site 326297005686 oligomer interface [polypeptide binding]; other site 326297005687 active site residues [active] 326297005688 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 326297005689 tandem repeat interface [polypeptide binding]; other site 326297005690 oligomer interface [polypeptide binding]; other site 326297005691 active site residues [active] 326297005692 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 326297005693 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 326297005694 active site 326297005695 FMN binding site [chemical binding]; other site 326297005696 2,4-decadienoyl-CoA binding site; other site 326297005697 catalytic residue [active] 326297005698 4Fe-4S cluster binding site [ion binding]; other site 326297005699 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 326297005700 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 326297005701 YCII-related domain; Region: YCII; pfam03795 326297005702 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 326297005703 catalytic loop [active] 326297005704 iron binding site [ion binding]; other site 326297005705 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 326297005706 dimer interface [polypeptide binding]; other site 326297005707 putative radical transfer pathway; other site 326297005708 diiron center [ion binding]; other site 326297005709 tyrosyl radical; other site 326297005710 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 326297005711 ATP cone domain; Region: ATP-cone; pfam03477 326297005712 Class I ribonucleotide reductase; Region: RNR_I; cd01679 326297005713 active site 326297005714 dimer interface [polypeptide binding]; other site 326297005715 catalytic residues [active] 326297005716 effector binding site; other site 326297005717 R2 peptide binding site; other site 326297005718 2-phosphoglycolate phosphatase, prokaryotic; Region: PGP_bact; TIGR01449 326297005719 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 326297005720 motif II; other site 326297005721 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 326297005722 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 326297005723 S-adenosylmethionine binding site [chemical binding]; other site 326297005724 DNA gyrase subunit A; Validated; Region: PRK05560 326297005725 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 326297005726 CAP-like domain; other site 326297005727 active site 326297005728 primary dimer interface [polypeptide binding]; other site 326297005729 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 326297005730 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 326297005731 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 326297005732 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 326297005733 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 326297005734 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 326297005735 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 326297005736 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 326297005737 catalytic residue [active] 326297005738 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 326297005739 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 326297005740 pyridoxal 5'-phosphate binding site [chemical binding]; other site 326297005741 homodimer interface [polypeptide binding]; other site 326297005742 catalytic residue [active] 326297005743 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 326297005744 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 326297005745 hinge; other site 326297005746 active site 326297005747 cytidylate kinase; Provisional; Region: cmk; PRK00023 326297005748 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 326297005749 CMP-binding site; other site 326297005750 The sites determining sugar specificity; other site 326297005751 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 326297005752 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 326297005753 RNA binding site [nucleotide binding]; other site 326297005754 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 326297005755 RNA binding site [nucleotide binding]; other site 326297005756 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 326297005757 RNA binding site [nucleotide binding]; other site 326297005758 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 326297005759 RNA binding site [nucleotide binding]; other site 326297005760 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 326297005761 RNA binding site [nucleotide binding]; other site 326297005762 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...; Region: S1_RPS1_repeat_ec6; cd05691 326297005763 RNA binding site [nucleotide binding]; other site 326297005764 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 326297005765 IHF dimer interface [polypeptide binding]; other site 326297005766 IHF - DNA interface [nucleotide binding]; other site 326297005767 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 326297005768 tetratricopeptide repeat protein; Provisional; Region: PRK11788 326297005769 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 326297005770 binding surface 326297005771 TPR motif; other site 326297005772 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 326297005773 active site 326297005774 dimer interface [polypeptide binding]; other site 326297005775 short chain dehydrogenase; Provisional; Region: PRK07576 326297005776 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 326297005777 NAD(P) binding site [chemical binding]; other site 326297005778 active site 326297005779 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 326297005780 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 326297005781 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 326297005782 active site 326297005783 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 326297005784 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 326297005785 Domain of unknown function (DUF1904); Region: DUF1904; pfam08921 326297005786 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 326297005787 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 326297005788 domain interface [polypeptide binding]; other site 326297005789 putative active site [active] 326297005790 catalytic site [active] 326297005791 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 326297005792 domain interface [polypeptide binding]; other site 326297005793 putative active site [active] 326297005794 catalytic site [active] 326297005795 Uncharacterized conserved protein [Function unknown]; Region: COG3148 326297005796 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 326297005797 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 326297005798 Protein of unknown function (DUF3080); Region: DUF3080; pfam11279 326297005799 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 326297005800 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 326297005801 Active site serine [active] 326297005802 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 326297005803 putative RNA methyltransferase; Provisional; Region: PRK10433 326297005804 ecotin; Provisional; Region: PRK03719 326297005805 secondary substrate binding site; other site 326297005806 primary substrate binding site; other site 326297005807 inhibition loop; other site 326297005808 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 326297005809 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 326297005810 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 326297005811 MarR family; Region: MarR; pfam01047 326297005812 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 326297005813 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 326297005814 putative metal dependent hydrolase; Provisional; Region: PRK11598 326297005815 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 326297005816 Sulfatase; Region: Sulfatase; pfam00884 326297005817 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297005818 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297005819 metal binding site [ion binding]; metal-binding site 326297005820 active site 326297005821 I-site; other site 326297005822 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 326297005823 CoA binding domain; Region: CoA_binding_2; pfam13380 326297005824 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 326297005825 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 326297005826 multidrug efflux protein; Reviewed; Region: PRK01766 326297005827 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 326297005828 cation binding site [ion binding]; other site 326297005829 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 326297005830 Lumazine binding domain; Region: Lum_binding; pfam00677 326297005831 Lumazine binding domain; Region: Lum_binding; pfam00677 326297005832 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 326297005833 pteridine reductase; Provisional; Region: PRK09135 326297005834 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 326297005835 NAD(P) binding site [chemical binding]; other site 326297005836 active site 326297005837 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 326297005838 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 326297005839 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 326297005840 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 326297005841 active site 326297005842 dimer interface [polypeptide binding]; other site 326297005843 motif 1; other site 326297005844 motif 2; other site 326297005845 motif 3; other site 326297005846 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 326297005847 anticodon binding site; other site 326297005848 translation initiation factor IF-3; Region: infC; TIGR00168 326297005849 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 326297005850 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 326297005851 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 326297005852 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 326297005853 23S rRNA binding site [nucleotide binding]; other site 326297005854 L21 binding site [polypeptide binding]; other site 326297005855 L13 binding site [polypeptide binding]; other site 326297005856 thioredoxin reductase; Provisional; Region: PRK10262 326297005857 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 326297005858 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 326297005859 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 326297005860 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 326297005861 hexamer interface [polypeptide binding]; other site 326297005862 ligand binding site [chemical binding]; other site 326297005863 putative active site [active] 326297005864 NAD(P) binding site [chemical binding]; other site 326297005865 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 326297005866 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 326297005867 putative DNA binding site [nucleotide binding]; other site 326297005868 putative Zn2+ binding site [ion binding]; other site 326297005869 AsnC family; Region: AsnC_trans_reg; pfam01037 326297005870 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 326297005871 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 326297005872 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 326297005873 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 326297005874 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 326297005875 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 326297005876 recombination factor protein RarA; Reviewed; Region: PRK13342 326297005877 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 326297005878 Walker A motif; other site 326297005879 ATP binding site [chemical binding]; other site 326297005880 Walker B motif; other site 326297005881 arginine finger; other site 326297005882 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 326297005883 camphor resistance protein CrcB; Provisional; Region: PRK14197 326297005884 seryl-tRNA synthetase; Provisional; Region: PRK05431 326297005885 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 326297005886 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 326297005887 dimer interface [polypeptide binding]; other site 326297005888 active site 326297005889 motif 1; other site 326297005890 motif 2; other site 326297005891 motif 3; other site 326297005892 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 326297005893 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 326297005894 DsrH like protein; Region: DsrH; cl17347 326297005895 sulfur relay protein TusC/DsrF; Region: sulf_tusC_dsrF; TIGR03010 326297005896 sulfur relay protein TusD/DsrE; Region: sulf_tusD_dsrE; TIGR03012 326297005897 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 326297005898 YccA-like proteins; Region: YccA_like; cd10433 326297005899 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 326297005900 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297005901 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 326297005902 dimerization interface [polypeptide binding]; other site 326297005903 putative transporter; Provisional; Region: PRK11043 326297005904 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 326297005905 putative substrate translocation pore; other site 326297005906 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 326297005907 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 326297005908 DNA binding residues [nucleotide binding] 326297005909 dimer interface [polypeptide binding]; other site 326297005910 copper binding site [ion binding]; other site 326297005911 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 326297005912 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 326297005913 metal-binding site [ion binding] 326297005914 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 326297005915 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 326297005916 metal-binding site [ion binding] 326297005917 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 326297005918 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 326297005919 motif II; other site 326297005920 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 326297005921 metal-binding site [ion binding] 326297005922 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 326297005923 active site 326297005924 phosphorylation site [posttranslational modification] 326297005925 intermolecular recognition site; other site 326297005926 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 326297005927 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 326297005928 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 326297005929 Zn2+ binding site [ion binding]; other site 326297005930 Mg2+ binding site [ion binding]; other site 326297005931 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 326297005932 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 326297005933 Low-spin heme binding site [chemical binding]; other site 326297005934 Putative water exit pathway; other site 326297005935 Binuclear center (active site) [active] 326297005936 Putative proton exit pathway; other site 326297005937 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 326297005938 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 326297005939 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 326297005940 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 326297005941 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 326297005942 Cytochrome c; Region: Cytochrom_C; pfam00034 326297005943 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 326297005944 FixH; Region: FixH; pfam05751 326297005945 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 326297005946 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 326297005947 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 326297005948 metal-binding site [ion binding] 326297005949 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 326297005950 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 326297005951 motif II; other site 326297005952 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 326297005953 Family description; Region: DsbD_2; pfam13386 326297005954 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 326297005955 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 326297005956 ligand binding site [chemical binding]; other site 326297005957 flexible hinge region; other site 326297005958 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 326297005959 putative switch regulator; other site 326297005960 non-specific DNA interactions [nucleotide binding]; other site 326297005961 DNA binding site [nucleotide binding] 326297005962 sequence specific DNA binding site [nucleotide binding]; other site 326297005963 putative cAMP binding site [chemical binding]; other site 326297005964 universal stress protein UspE; Provisional; Region: PRK11175 326297005965 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 326297005966 Ligand Binding Site [chemical binding]; other site 326297005967 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 326297005968 Ligand Binding Site [chemical binding]; other site 326297005969 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 326297005970 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 326297005971 Ligand Binding Site [chemical binding]; other site 326297005972 Protein of unknown function (DUF2987); Region: DUF2987; pfam11205 326297005973 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 326297005974 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 326297005975 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 326297005976 phosphate binding site [ion binding]; other site 326297005977 putative substrate binding pocket [chemical binding]; other site 326297005978 dimer interface [polypeptide binding]; other site 326297005979 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 326297005980 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 326297005981 pyridoxal 5'-phosphate binding site [chemical binding]; other site 326297005982 homodimer interface [polypeptide binding]; other site 326297005983 catalytic residue [active] 326297005984 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 326297005985 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 326297005986 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 326297005987 Protein of unknown function (DUF2989); Region: DUF2989; pfam11207 326297005988 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 326297005989 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 326297005990 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 326297005991 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 326297005992 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 326297005993 active site 326297005994 intersubunit interface [polypeptide binding]; other site 326297005995 catalytic residue [active] 326297005996 phosphogluconate dehydratase; Validated; Region: PRK09054 326297005997 6-phosphogluconate dehydratase; Region: edd; TIGR01196 326297005998 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 326297005999 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 326297006000 putative active site [active] 326297006001 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 326297006002 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 326297006003 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 326297006004 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 326297006005 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 326297006006 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 326297006007 putative active site [active] 326297006008 pyruvate kinase; Provisional; Region: PRK05826 326297006009 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 326297006010 domain interfaces; other site 326297006011 active site 326297006012 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 326297006013 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 326297006014 active site 326297006015 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 326297006016 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 326297006017 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 326297006018 Peptidase family M2 Angiotensin converting enzyme (ACE); Region: M2_ACE; cd06461 326297006019 active site 326297006020 Zn binding site [ion binding]; other site 326297006021 Scaffold protein B; Region: Phage_B; cl17017 326297006022 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 326297006023 Smr domain; Region: Smr; pfam01713 326297006024 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 326297006025 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 326297006026 SEC-C motif; Region: SEC-C; pfam02810 326297006027 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 326297006028 GAF domain; Region: GAF; pfam01590 326297006029 PAS domain; Region: PAS_9; pfam13426 326297006030 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 326297006031 putative active site [active] 326297006032 heme pocket [chemical binding]; other site 326297006033 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297006034 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297006035 metal binding site [ion binding]; metal-binding site 326297006036 active site 326297006037 I-site; other site 326297006038 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 326297006039 Protein of unknown function (DUF406); Region: DUF406; pfam04175 326297006040 Ribosomal S4P (gammaproteobacterial); Region: Ribosomal_S4Pg; pfam11993 326297006041 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 326297006042 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 326297006043 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 326297006044 catalytic residue [active] 326297006045 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 326297006046 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 326297006047 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 326297006048 Ligand Binding Site [chemical binding]; other site 326297006049 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 326297006050 excinuclease ABC subunit B; Provisional; Region: PRK05298 326297006051 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 326297006052 ATP binding site [chemical binding]; other site 326297006053 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 326297006054 nucleotide binding region [chemical binding]; other site 326297006055 ATP-binding site [chemical binding]; other site 326297006056 Ultra-violet resistance protein B; Region: UvrB; pfam12344 326297006057 UvrB/uvrC motif; Region: UVR; pfam02151 326297006058 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297006059 metal binding site [ion binding]; metal-binding site 326297006060 active site 326297006061 I-site; other site 326297006062 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 326297006063 electron transport complex protein RsxA; Provisional; Region: PRK05151 326297006064 ferredoxin; Provisional; Region: PRK08764 326297006065 Putative Fe-S cluster; Region: FeS; pfam04060 326297006066 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 326297006067 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 326297006068 SLBB domain; Region: SLBB; pfam10531 326297006069 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 326297006070 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 326297006071 electron transport complex protein RnfG; Validated; Region: PRK01908 326297006072 electron transport complex RsxE subunit; Provisional; Region: PRK12405 326297006073 endonuclease III; Provisional; Region: PRK10702 326297006074 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 326297006075 minor groove reading motif; other site 326297006076 helix-hairpin-helix signature motif; other site 326297006077 substrate binding pocket [chemical binding]; other site 326297006078 active site 326297006079 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 326297006080 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 326297006081 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 326297006082 dimer interface [polypeptide binding]; other site 326297006083 active site 326297006084 metal binding site [ion binding]; metal-binding site 326297006085 glutathione binding site [chemical binding]; other site 326297006086 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 326297006087 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 326297006088 N-terminal plug; other site 326297006089 ligand-binding site [chemical binding]; other site 326297006090 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 326297006091 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 326297006092 Walker A motif; other site 326297006093 ATP binding site [chemical binding]; other site 326297006094 Walker B motif; other site 326297006095 arginine finger; other site 326297006096 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 326297006097 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 326297006098 RuvA N terminal domain; Region: RuvA_N; pfam01330 326297006099 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 326297006100 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 326297006101 active site 326297006102 putative DNA-binding cleft [nucleotide binding]; other site 326297006103 dimer interface [polypeptide binding]; other site 326297006104 hypothetical protein; Validated; Region: PRK00110 326297006105 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 326297006106 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 326297006107 dimer interface [polypeptide binding]; other site 326297006108 anticodon binding site; other site 326297006109 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 326297006110 homodimer interface [polypeptide binding]; other site 326297006111 motif 1; other site 326297006112 active site 326297006113 motif 2; other site 326297006114 GAD domain; Region: GAD; pfam02938 326297006115 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 326297006116 active site 326297006117 motif 3; other site 326297006118 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 326297006119 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 326297006120 substrate binding pocket [chemical binding]; other site 326297006121 membrane-bound complex binding site; other site 326297006122 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 326297006123 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 326297006124 substrate binding pocket [chemical binding]; other site 326297006125 membrane-bound complex binding site; other site 326297006126 hinge residues; other site 326297006127 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 326297006128 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 326297006129 substrate binding pocket [chemical binding]; other site 326297006130 membrane-bound complex binding site; other site 326297006131 hinge residues; other site 326297006132 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297006133 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297006134 metal binding site [ion binding]; metal-binding site 326297006135 active site 326297006136 I-site; other site 326297006137 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 326297006138 S-adenosylmethionine binding site [chemical binding]; other site 326297006139 Methyltransferase domain; Region: Methyltransf_23; pfam13489 326297006140 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 326297006141 S-adenosylmethionine binding site [chemical binding]; other site 326297006142 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 326297006143 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 326297006144 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 326297006145 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 326297006146 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 326297006147 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 326297006148 Domain of unknown function (DUF3541); Region: DUF3541; pfam12060 326297006149 Transcriptional regulator [Transcription]; Region: LysR; COG0583 326297006150 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297006151 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 326297006152 dimerization interface [polypeptide binding]; other site 326297006153 SprA-related family; Region: SprA-related; pfam12118 326297006154 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 326297006155 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 326297006156 FeS/SAM binding site; other site 326297006157 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 326297006158 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 326297006159 ThiS interaction site; other site 326297006160 putative active site [active] 326297006161 tetramer interface [polypeptide binding]; other site 326297006162 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 326297006163 thiS-thiF/thiG interaction site; other site 326297006164 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 326297006165 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 326297006166 ATP binding site [chemical binding]; other site 326297006167 substrate interface [chemical binding]; other site 326297006168 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 326297006169 dimer interface [polypeptide binding]; other site 326297006170 HMP-P kinase/thiamin-monophosphate pyrophosphorylase; Region: PLN02898 326297006171 substrate binding site [chemical binding]; other site 326297006172 ATP binding site [chemical binding]; other site 326297006173 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 326297006174 active site 326297006175 thiamine phosphate binding site [chemical binding]; other site 326297006176 pyrophosphate binding site [ion binding]; other site 326297006177 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 326297006178 ThiC-associated domain; Region: ThiC-associated; pfam13667 326297006179 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 326297006180 cell division protein ZipA; Provisional; Region: PRK03427 326297006181 Haemolysin-III related; Region: HlyIII; cl03831 326297006182 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 326297006183 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 326297006184 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 326297006185 putative active site [active] 326297006186 putative PHP Thumb interface [polypeptide binding]; other site 326297006187 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 326297006188 generic binding surface II; other site 326297006189 generic binding surface I; other site 326297006190 active site 326297006191 impB/mucB/samB family; Region: IMS; pfam00817 326297006192 DNA Polymerase Y-family; Region: PolY_like; cd03468 326297006193 DNA binding site [nucleotide binding] 326297006194 Uncharacterized conserved protein [Function unknown]; Region: COG4544 326297006195 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 326297006196 HAMP domain; Region: HAMP; pfam00672 326297006197 dimerization interface [polypeptide binding]; other site 326297006198 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 326297006199 dimer interface [polypeptide binding]; other site 326297006200 phosphorylation site [posttranslational modification] 326297006201 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 326297006202 ATP binding site [chemical binding]; other site 326297006203 Mg2+ binding site [ion binding]; other site 326297006204 G-X-G motif; other site 326297006205 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 326297006206 active site 326297006207 DNA binding site [nucleotide binding] 326297006208 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 326297006209 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 326297006210 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 326297006211 putative active site [active] 326297006212 putative dimer interface [polypeptide binding]; other site 326297006213 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 326297006214 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 326297006215 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 326297006216 active site 326297006217 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 326297006218 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 326297006219 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 326297006220 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 326297006221 Histidine kinase; Region: HisKA_3; pfam07730 326297006222 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 326297006223 ATP binding site [chemical binding]; other site 326297006224 Mg2+ binding site [ion binding]; other site 326297006225 G-X-G motif; other site 326297006226 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 326297006227 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297006228 active site 326297006229 phosphorylation site [posttranslational modification] 326297006230 intermolecular recognition site; other site 326297006231 dimerization interface [polypeptide binding]; other site 326297006232 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 326297006233 DNA binding residues [nucleotide binding] 326297006234 dimerization interface [polypeptide binding]; other site 326297006235 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 326297006236 active site 326297006237 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 326297006238 active site 326297006239 catalytic residues [active] 326297006240 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 326297006241 PA/subtilisin-like domain interface [polypeptide binding]; other site 326297006242 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 326297006243 catalytic residues [active] 326297006244 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 326297006245 Transposase; Region: HTH_Tnp_1; pfam01527 326297006246 putative transposase OrfB; Reviewed; Region: PHA02517 326297006247 HTH-like domain; Region: HTH_21; pfam13276 326297006248 Integrase core domain; Region: rve; pfam00665 326297006249 Integrase core domain; Region: rve_2; pfam13333 326297006250 TIGR03503 family protein; Region: TIGR03503 326297006251 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 326297006252 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 326297006253 active site 326297006254 catalytic site [active] 326297006255 substrate binding site [chemical binding]; other site 326297006256 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 326297006257 RNA/DNA hybrid binding site [nucleotide binding]; other site 326297006258 active site 326297006259 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 326297006260 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297006261 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 326297006262 putative dimerization interface [polypeptide binding]; other site 326297006263 Methyltransferase domain; Region: Methyltransf_11; pfam08241 326297006264 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 326297006265 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 326297006266 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 326297006267 N-acetyl-D-glucosamine binding site [chemical binding]; other site 326297006268 catalytic residue [active] 326297006269 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 326297006270 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 326297006271 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 326297006272 Intracellular proteinase inhibitor; Region: BsuPI; pfam12690 326297006273 AsmA family; Region: AsmA; pfam05170 326297006274 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 326297006275 ribonuclease activity regulator protein RraA; Reviewed; Region: PRK12487 326297006276 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 326297006277 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 326297006278 substrate binding pocket [chemical binding]; other site 326297006279 membrane-bound complex binding site; other site 326297006280 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 326297006281 dimerization interface [polypeptide binding]; other site 326297006282 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297006283 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297006284 metal binding site [ion binding]; metal-binding site 326297006285 active site 326297006286 I-site; other site 326297006287 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 326297006288 TMAO/DMSO reductase; Reviewed; Region: PRK05363 326297006289 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 326297006290 Moco binding site; other site 326297006291 metal coordination site [ion binding]; other site 326297006292 RmuC family; Region: RmuC; pfam02646 326297006293 lytic murein transglycosylase; Provisional; Region: PRK11619 326297006294 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 326297006295 N-acetyl-D-glucosamine binding site [chemical binding]; other site 326297006296 catalytic residue [active] 326297006297 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 326297006298 MoxR-like ATPases [General function prediction only]; Region: COG0714 326297006299 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 326297006300 Walker A motif; other site 326297006301 ATP binding site [chemical binding]; other site 326297006302 Walker B motif; other site 326297006303 arginine finger; other site 326297006304 Protein of unknown function DUF58; Region: DUF58; pfam01882 326297006305 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 326297006306 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 326297006307 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 326297006308 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 326297006309 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 326297006310 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 326297006311 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 326297006312 Part of AAA domain; Region: AAA_19; pfam13245 326297006313 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 326297006314 AAA domain; Region: AAA_30; pfam13604 326297006315 Family description; Region: UvrD_C_2; pfam13538 326297006316 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 326297006317 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 326297006318 ATP-grasp domain; Region: ATP-grasp_4; cl17255 326297006319 AMP-binding domain protein; Validated; Region: PRK08315 326297006320 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 326297006321 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 326297006322 acyl-activating enzyme (AAE) consensus motif; other site 326297006323 putative AMP binding site [chemical binding]; other site 326297006324 putative active site [active] 326297006325 putative CoA binding site [chemical binding]; other site 326297006326 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 326297006327 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 326297006328 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 326297006329 HlyD family secretion protein; Region: HlyD_3; pfam13437 326297006330 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 326297006331 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 326297006332 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 326297006333 dihydrodipicolinate synthase; Region: dapA; TIGR00674 326297006334 dimer interface [polypeptide binding]; other site 326297006335 active site 326297006336 catalytic residue [active] 326297006337 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 326297006338 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 326297006339 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 326297006340 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 326297006341 catalytic triad [active] 326297006342 Domain of unknown function DUF20; Region: UPF0118; pfam01594 326297006343 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 326297006344 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 326297006345 CPxP motif; other site 326297006346 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 326297006347 Peptidase family M48; Region: Peptidase_M48; cl12018 326297006348 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 326297006349 TPR motif; other site 326297006350 binding surface 326297006351 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 326297006352 binding surface 326297006353 TPR motif; other site 326297006354 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 326297006355 ArsC family; Region: ArsC; pfam03960 326297006356 catalytic residues [active] 326297006357 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 326297006358 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 326297006359 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 326297006360 Walker A motif; other site 326297006361 ATP binding site [chemical binding]; other site 326297006362 Walker B motif; other site 326297006363 arginine finger; other site 326297006364 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3249 326297006365 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 326297006366 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 326297006367 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 326297006368 putative GSH binding site [chemical binding]; other site 326297006369 catalytic residues [active] 326297006370 superoxide dismutase; Provisional; Region: PRK10543 326297006371 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 326297006372 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 326297006373 PrkA family serine protein kinase; Provisional; Region: PRK15455 326297006374 AAA ATPase domain; Region: AAA_16; pfam13191 326297006375 Walker A motif; other site 326297006376 ATP binding site [chemical binding]; other site 326297006377 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 326297006378 hypothetical protein; Provisional; Region: PRK05325 326297006379 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 326297006380 SpoVR family protein; Provisional; Region: PRK11767 326297006381 fatty acid metabolism regulator; Provisional; Region: PRK04984 326297006382 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 326297006383 DNA-binding site [nucleotide binding]; DNA binding site 326297006384 FadR C-terminal domain; Region: FadR_C; pfam07840 326297006385 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 326297006386 disulfide bond formation protein B; Provisional; Region: PRK01749 326297006387 hypothetical protein; Provisional; Region: PRK05170 326297006388 Transglycosylase SLT domain; Region: SLT_2; pfam13406 326297006389 murein hydrolase B; Provisional; Region: PRK10760; cl17906 326297006390 YcgL domain; Region: YcgL; pfam05166 326297006391 septum formation inhibitor; Reviewed; Region: minC; PRK04804 326297006392 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 326297006393 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 326297006394 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 326297006395 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 326297006396 Switch I; other site 326297006397 Switch II; other site 326297006398 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 326297006399 ribonuclease D; Region: rnd; TIGR01388 326297006400 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 326297006401 catalytic site [active] 326297006402 putative active site [active] 326297006403 putative substrate binding site [chemical binding]; other site 326297006404 HRDC domain; Region: HRDC; pfam00570 326297006405 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 326297006406 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 326297006407 acyl-activating enzyme (AAE) consensus motif; other site 326297006408 putative AMP binding site [chemical binding]; other site 326297006409 putative active site [active] 326297006410 putative CoA binding site [chemical binding]; other site 326297006411 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 326297006412 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 326297006413 PGAP1-like protein; Region: PGAP1; pfam07819 326297006414 Predicted methyltransferase [General function prediction only]; Region: COG4798 326297006415 Methyltransferase domain; Region: Methyltransf_23; pfam13489 326297006416 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 326297006417 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 326297006418 Glycoprotease family; Region: Peptidase_M22; pfam00814 326297006419 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 326297006420 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 326297006421 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 326297006422 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 326297006423 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 326297006424 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 326297006425 Histidinol dehydrogenase; Region: Histidinol_dh; pfam00815 326297006426 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 326297006427 NAD binding site [chemical binding]; other site 326297006428 dimerization interface [polypeptide binding]; other site 326297006429 product binding site; other site 326297006430 substrate binding site [chemical binding]; other site 326297006431 zinc binding site [ion binding]; other site 326297006432 catalytic residues [active] 326297006433 histidinol-phosphate aminotransferase; Provisional; Region: PRK04635 326297006434 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 326297006435 pyridoxal 5'-phosphate binding site [chemical binding]; other site 326297006436 homodimer interface [polypeptide binding]; other site 326297006437 catalytic residue [active] 326297006438 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 326297006439 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 326297006440 active site 326297006441 motif I; other site 326297006442 motif II; other site 326297006443 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 326297006444 putative active site pocket [active] 326297006445 4-fold oligomerization interface [polypeptide binding]; other site 326297006446 metal binding residues [ion binding]; metal-binding site 326297006447 3-fold/trimer interface [polypeptide binding]; other site 326297006448 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 326297006449 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 326297006450 putative active site [active] 326297006451 oxyanion strand; other site 326297006452 catalytic triad [active] 326297006453 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 326297006454 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 326297006455 catalytic residues [active] 326297006456 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 326297006457 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 326297006458 substrate binding site [chemical binding]; other site 326297006459 glutamase interaction surface [polypeptide binding]; other site 326297006460 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 326297006461 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 326297006462 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 326297006463 metal binding site [ion binding]; metal-binding site 326297006464 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 326297006465 GAF domain; Region: GAF; pfam01590 326297006466 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297006467 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297006468 metal binding site [ion binding]; metal-binding site 326297006469 active site 326297006470 I-site; other site 326297006471 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 326297006472 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 326297006473 putative acyl-acceptor binding pocket; other site 326297006474 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 326297006475 IHF dimer interface [polypeptide binding]; other site 326297006476 IHF - DNA interface [nucleotide binding]; other site 326297006477 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 326297006478 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 326297006479 putative tRNA-binding site [nucleotide binding]; other site 326297006480 B3/4 domain; Region: B3_4; pfam03483 326297006481 tRNA synthetase B5 domain; Region: B5; smart00874 326297006482 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 326297006483 dimer interface [polypeptide binding]; other site 326297006484 motif 1; other site 326297006485 motif 3; other site 326297006486 motif 2; other site 326297006487 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 326297006488 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 326297006489 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 326297006490 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 326297006491 dimer interface [polypeptide binding]; other site 326297006492 motif 1; other site 326297006493 active site 326297006494 motif 2; other site 326297006495 motif 3; other site 326297006496 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 326297006497 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 326297006498 dimer interface [polypeptide binding]; other site 326297006499 putative CheW interface [polypeptide binding]; other site 326297006500 PAS fold; Region: PAS_4; pfam08448 326297006501 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 326297006502 putative active site [active] 326297006503 heme pocket [chemical binding]; other site 326297006504 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 326297006505 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 326297006506 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 326297006507 Protein of unknown function (DUF3802); Region: DUF3802; pfam12290 326297006508 YceI-like domain; Region: YceI; pfam04264 326297006509 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 326297006510 DNA-binding site [nucleotide binding]; DNA binding site 326297006511 RNA-binding motif; other site 326297006512 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 326297006513 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 326297006514 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 326297006515 Adenosylmethionine decarboxylase; Region: SAM_decarbox; cl03253 326297006516 arginine decarboxylase; Provisional; Region: PRK05354 326297006517 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 326297006518 dimer interface [polypeptide binding]; other site 326297006519 active site 326297006520 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 326297006521 catalytic residues [active] 326297006522 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 326297006523 spermidine synthase; Provisional; Region: PRK00811 326297006524 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 326297006525 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 326297006526 S1 domain; Region: S1_2; pfam13509 326297006527 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 326297006528 RNA binding site [nucleotide binding]; other site 326297006529 hypothetical protein; Provisional; Region: PRK11239 326297006530 Protein of unknown function, DUF480; Region: DUF480; pfam04337 326297006531 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 326297006532 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 326297006533 Walker A/P-loop; other site 326297006534 ATP binding site [chemical binding]; other site 326297006535 Q-loop/lid; other site 326297006536 ABC transporter signature motif; other site 326297006537 Walker B; other site 326297006538 D-loop; other site 326297006539 H-loop/switch region; other site 326297006540 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 326297006541 DNA-binding site [nucleotide binding]; DNA binding site 326297006542 RNA-binding motif; other site 326297006543 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 326297006544 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 326297006545 S-adenosylmethionine binding site [chemical binding]; other site 326297006546 exonuclease I; Provisional; Region: sbcB; PRK11779 326297006547 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 326297006548 active site 326297006549 catalytic site [active] 326297006550 substrate binding site [chemical binding]; other site 326297006551 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 326297006552 cytidine deaminase; Provisional; Region: PRK09027 326297006553 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 326297006554 active site 326297006555 catalytic motif [active] 326297006556 Zn binding site [ion binding]; other site 326297006557 Cytidine and deoxycytidylate deaminase zinc-binding region; Region: dCMP_cyt_deam_2; pfam08211 326297006558 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 326297006559 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 326297006560 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 326297006561 uncharacterized ygcE-like proteins; Region: FGGY_ygcE_like; cd07779 326297006562 putative N- and C-terminal domain interface [polypeptide binding]; other site 326297006563 putative active site [active] 326297006564 MgATP binding site [chemical binding]; other site 326297006565 catalytic site [active] 326297006566 metal binding site [ion binding]; metal-binding site 326297006567 putative carbohydrate binding site [chemical binding]; other site 326297006568 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 326297006569 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 326297006570 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 326297006571 dimer interface [polypeptide binding]; other site 326297006572 active site 326297006573 acyl carrier protein; Provisional; Region: acpP; PRK00982 326297006574 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 326297006575 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 326297006576 NAD(P) binding site [chemical binding]; other site 326297006577 homotetramer interface [polypeptide binding]; other site 326297006578 homodimer interface [polypeptide binding]; other site 326297006579 active site 326297006580 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 326297006581 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 326297006582 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 326297006583 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 326297006584 dimer interface [polypeptide binding]; other site 326297006585 active site 326297006586 CoA binding pocket [chemical binding]; other site 326297006587 putative phosphate acyltransferase; Provisional; Region: PRK05331 326297006588 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 326297006589 hypothetical protein; Provisional; Region: PRK11193 326297006590 Maf-like protein; Region: Maf; pfam02545 326297006591 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 326297006592 active site 326297006593 dimer interface [polypeptide binding]; other site 326297006594 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 326297006595 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 326297006596 motif II; other site 326297006597 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 326297006598 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 326297006599 RNA binding surface [nucleotide binding]; other site 326297006600 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 326297006601 active site 326297006602 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 326297006603 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 326297006604 homodimer interface [polypeptide binding]; other site 326297006605 oligonucleotide binding site [chemical binding]; other site 326297006606 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 326297006607 Sulfate transporter family; Region: Sulfate_transp; pfam00916 326297006608 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 326297006609 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 326297006610 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 326297006611 methionine sulfoxide reductase A; Provisional; Region: PRK14054 326297006612 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 326297006613 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 326297006614 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 326297006615 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 326297006616 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 326297006617 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 326297006618 GTP/Mg2+ binding site [chemical binding]; other site 326297006619 G4 box; other site 326297006620 G5 box; other site 326297006621 G1 box; other site 326297006622 Switch I region; other site 326297006623 G2 box; other site 326297006624 G3 box; other site 326297006625 Switch II region; other site 326297006626 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 326297006627 Low molecular weight phosphatase family; Region: LMWPc; cd00115 326297006628 active site 326297006629 DNA ligase; Provisional; Region: PRK09125 326297006630 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 326297006631 active site 326297006632 DNA binding site [nucleotide binding] 326297006633 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 326297006634 DNA binding site [nucleotide binding] 326297006635 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 326297006636 transcriptional regulator HdfR; Provisional; Region: PRK03601 326297006637 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297006638 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 326297006639 dimerization interface [polypeptide binding]; other site 326297006640 hypothetical protein; Provisional; Region: PRK11027 326297006641 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 326297006642 ATP-grasp domain; Region: ATP-grasp_4; cl17255 326297006643 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297006644 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297006645 metal binding site [ion binding]; metal-binding site 326297006646 active site 326297006647 I-site; other site 326297006648 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 326297006649 active site 326297006650 catalytic site [active] 326297006651 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 326297006652 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 326297006653 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 326297006654 metal ion-dependent adhesion site (MIDAS); other site 326297006655 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 326297006656 ligand binding site [chemical binding]; other site 326297006657 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 326297006658 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297006659 active site 326297006660 phosphorylation site [posttranslational modification] 326297006661 intermolecular recognition site; other site 326297006662 dimerization interface [polypeptide binding]; other site 326297006663 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 326297006664 DNA binding site [nucleotide binding] 326297006665 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 326297006666 DOMON-like type 9 carbohydrate binding module at the N-terminus of bacterial sensor histidine kinases; Region: CBM9_like_HisKa; cd09622 326297006667 putative ligand binding site [chemical binding]; other site 326297006668 HAMP domain; Region: HAMP; pfam00672 326297006669 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 326297006670 dimer interface [polypeptide binding]; other site 326297006671 phosphorylation site [posttranslational modification] 326297006672 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 326297006673 ATP binding site [chemical binding]; other site 326297006674 Mg2+ binding site [ion binding]; other site 326297006675 G-X-G motif; other site 326297006676 Protein of unknown function (DUF2785); Region: DUF2785; pfam10978 326297006677 cystathionine beta-lyase; Provisional; Region: PRK09028 326297006678 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 326297006679 homodimer interface [polypeptide binding]; other site 326297006680 substrate-cofactor binding pocket; other site 326297006681 pyridoxal 5'-phosphate binding site [chemical binding]; other site 326297006682 catalytic residue [active] 326297006683 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 326297006684 CreA protein; Region: CreA; pfam05981 326297006685 putative chaperone; Provisional; Region: PRK11678 326297006686 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 326297006687 nucleotide binding site [chemical binding]; other site 326297006688 putative NEF/HSP70 interaction site [polypeptide binding]; other site 326297006689 SBD interface [polypeptide binding]; other site 326297006690 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 326297006691 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 326297006692 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 326297006693 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 326297006694 domain interface [polypeptide binding]; other site 326297006695 active site 326297006696 catalytic site [active] 326297006697 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 326297006698 domain interface [polypeptide binding]; other site 326297006699 active site 326297006700 catalytic site [active] 326297006701 exopolyphosphatase; Region: exo_poly_only; TIGR03706 326297006702 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 326297006703 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 326297006704 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 326297006705 Sulfate transporter family; Region: Sulfate_transp; pfam00916 326297006706 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 326297006707 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 326297006708 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 326297006709 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 326297006710 DNA-binding site [nucleotide binding]; DNA binding site 326297006711 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 326297006712 pyridoxal 5'-phosphate binding site [chemical binding]; other site 326297006713 homodimer interface [polypeptide binding]; other site 326297006714 catalytic residue [active] 326297006715 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 326297006716 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 326297006717 putative substrate translocation pore; other site 326297006718 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK08979 326297006719 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 326297006720 PYR/PP interface [polypeptide binding]; other site 326297006721 dimer interface [polypeptide binding]; other site 326297006722 TPP binding site [chemical binding]; other site 326297006723 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 326297006724 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 326297006725 TPP-binding site [chemical binding]; other site 326297006726 dimer interface [polypeptide binding]; other site 326297006727 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 326297006728 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 326297006729 putative valine binding site [chemical binding]; other site 326297006730 dimer interface [polypeptide binding]; other site 326297006731 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 326297006732 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 326297006733 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 326297006734 putative dimer interface [polypeptide binding]; other site 326297006735 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 326297006736 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 326297006737 active site 326297006738 metal binding site [ion binding]; metal-binding site 326297006739 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 326297006740 putative hydrolase; Provisional; Region: PRK11460 326297006741 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 326297006742 Protein of unknown function (DUF3389); Region: DUF3389; pfam11869 326297006743 Phosphotransferase enzyme family; Region: APH; pfam01636 326297006744 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 326297006745 substrate binding site [chemical binding]; other site 326297006746 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 326297006747 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 326297006748 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 326297006749 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 326297006750 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 326297006751 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 326297006752 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 326297006753 WYL domain; Region: WYL; pfam13280 326297006754 Transglycosylase SLT domain; Region: SLT_2; pfam13406 326297006755 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 326297006756 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 326297006757 N-acetyl-D-glucosamine binding site [chemical binding]; other site 326297006758 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 326297006759 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 326297006760 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 326297006761 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 326297006762 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297006763 active site 326297006764 phosphorylation site [posttranslational modification] 326297006765 intermolecular recognition site; other site 326297006766 dimerization interface [polypeptide binding]; other site 326297006767 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 326297006768 Methyltransferase domain; Region: Methyltransf_23; pfam13489 326297006769 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 326297006770 S-adenosylmethionine binding site [chemical binding]; other site 326297006771 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 326297006772 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 326297006773 RNA polymerase sigma-70 factor, TIGR02952 family; Region: Sig70_famx2 326297006774 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 326297006775 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 326297006776 DNA binding residues [nucleotide binding] 326297006777 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 326297006778 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 326297006779 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 326297006780 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 326297006781 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 326297006782 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 326297006783 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 326297006784 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 326297006785 active site 326297006786 PilZ domain; Region: PilZ; cl01260 326297006787 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 326297006788 DNA polymerase III subunit delta'; Validated; Region: PRK08485 326297006789 thymidylate kinase; Validated; Region: tmk; PRK00698 326297006790 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 326297006791 TMP-binding site; other site 326297006792 ATP-binding site [chemical binding]; other site 326297006793 YceG-like family; Region: YceG; pfam02618 326297006794 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 326297006795 dimerization interface [polypeptide binding]; other site 326297006796 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 326297006797 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 326297006798 pyridoxal 5'-phosphate binding site [chemical binding]; other site 326297006799 catalytic residue [active] 326297006800 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 326297006801 trimer interface [polypeptide binding]; other site 326297006802 active site 326297006803 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 326297006804 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 326297006805 ATP-binding site [chemical binding]; other site 326297006806 Sugar specificity; other site 326297006807 Pyrimidine base specificity; other site 326297006808 antiporter inner membrane protein; Provisional; Region: PRK11670 326297006809 Domain of unknown function DUF59; Region: DUF59; cl00941 326297006810 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 326297006811 Walker A motif; other site 326297006812 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 326297006813 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 326297006814 active site 326297006815 HIGH motif; other site 326297006816 KMSKS motif; other site 326297006817 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 326297006818 tRNA binding surface [nucleotide binding]; other site 326297006819 anticodon binding site; other site 326297006820 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 326297006821 dimer interface [polypeptide binding]; other site 326297006822 putative tRNA-binding site [nucleotide binding]; other site 326297006823 Uncharacterized conserved protein [Function unknown]; Region: COG0327 326297006824 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 326297006825 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 326297006826 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 326297006827 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 326297006828 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 326297006829 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 326297006830 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 326297006831 rRNA binding site [nucleotide binding]; other site 326297006832 predicted 30S ribosome binding site; other site 326297006833 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 326297006834 Clp amino terminal domain; Region: Clp_N; pfam02861 326297006835 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 326297006836 Walker A motif; other site 326297006837 ATP binding site [chemical binding]; other site 326297006838 Walker B motif; other site 326297006839 arginine finger; other site 326297006840 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 326297006841 Walker A motif; other site 326297006842 ATP binding site [chemical binding]; other site 326297006843 Walker B motif; other site 326297006844 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 326297006845 Uncharacterized conserved protein [Function unknown]; Region: COG2127 326297006846 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 326297006847 DNA-binding site [nucleotide binding]; DNA binding site 326297006848 RNA-binding motif; other site 326297006849 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 326297006850 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 326297006851 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 326297006852 pseudouridine synthase; Region: TIGR00093 326297006853 probable active site [active] 326297006854 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 326297006855 nudix motif; other site 326297006856 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 326297006857 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 326297006858 putative lysogenization regulator; Reviewed; Region: PRK00218 326297006859 adenylosuccinate lyase; Provisional; Region: PRK09285 326297006860 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 326297006861 tetramer interface [polypeptide binding]; other site 326297006862 active site 326297006863 Cupin superfamily protein; Region: Cupin_4; pfam08007 326297006864 Cupin-like domain; Region: Cupin_8; pfam13621 326297006865 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 326297006866 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 326297006867 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 326297006868 NAD binding site [chemical binding]; other site 326297006869 Phe binding site; other site 326297006870 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 326297006871 MarR family; Region: MarR_2; pfam12802 326297006872 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 326297006873 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 326297006874 FAD binding domain; Region: FAD_binding_4; pfam01565 326297006875 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 326297006876 phosphoenolpyruvate synthase; Validated; Region: PRK06464 326297006877 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 326297006878 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 326297006879 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 326297006880 PEP synthetase regulatory protein; Provisional; Region: PRK05339 326297006881 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 326297006882 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 326297006883 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 326297006884 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 326297006885 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297006886 active site 326297006887 phosphorylation site [posttranslational modification] 326297006888 intermolecular recognition site; other site 326297006889 dimerization interface [polypeptide binding]; other site 326297006890 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 326297006891 DNA binding residues [nucleotide binding] 326297006892 dimerization interface [polypeptide binding]; other site 326297006893 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 326297006894 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 326297006895 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 326297006896 Na binding site [ion binding]; other site 326297006897 PAS domain; Region: PAS; smart00091 326297006898 PAS fold; Region: PAS_7; pfam12860 326297006899 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 326297006900 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 326297006901 dimer interface [polypeptide binding]; other site 326297006902 phosphorylation site [posttranslational modification] 326297006903 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 326297006904 ATP binding site [chemical binding]; other site 326297006905 Mg2+ binding site [ion binding]; other site 326297006906 G-X-G motif; other site 326297006907 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 326297006908 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297006909 active site 326297006910 phosphorylation site [posttranslational modification] 326297006911 intermolecular recognition site; other site 326297006912 dimerization interface [polypeptide binding]; other site 326297006913 acetyl-CoA synthetase; Provisional; Region: PRK00174 326297006914 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 326297006915 active site 326297006916 CoA binding site [chemical binding]; other site 326297006917 acyl-activating enzyme (AAE) consensus motif; other site 326297006918 AMP binding site [chemical binding]; other site 326297006919 acetate binding site [chemical binding]; other site 326297006920 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 326297006921 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 326297006922 ATP binding site [chemical binding]; other site 326297006923 putative Mg++ binding site [ion binding]; other site 326297006924 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 326297006925 nucleotide binding region [chemical binding]; other site 326297006926 ATP-binding site [chemical binding]; other site 326297006927 Double zinc ribbon; Region: DZR; pfam12773 326297006928 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 326297006929 GSH binding site [chemical binding]; other site 326297006930 catalytic residues [active] 326297006931 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 326297006932 GAF domain; Region: GAF; cl17456 326297006933 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 326297006934 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 326297006935 dimer interface [polypeptide binding]; other site 326297006936 phosphorylation site [posttranslational modification] 326297006937 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 326297006938 ATP binding site [chemical binding]; other site 326297006939 Mg2+ binding site [ion binding]; other site 326297006940 G-X-G motif; other site 326297006941 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 326297006942 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 326297006943 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 326297006944 TPR motif; other site 326297006945 binding surface 326297006946 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 326297006947 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 326297006948 ligand binding site [chemical binding]; other site 326297006949 translocation protein TolB; Provisional; Region: tolB; PRK04792 326297006950 TolB amino-terminal domain; Region: TolB_N; pfam04052 326297006951 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 326297006952 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 326297006953 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 326297006954 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 326297006955 TolA protein; Region: tolA_full; TIGR02794 326297006956 TolA C-terminal; Region: TolA; pfam06519 326297006957 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 326297006958 TolR protein; Region: tolR; TIGR02801 326297006959 TolQ protein; Region: tolQ; TIGR02796 326297006960 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 326297006961 active site 326297006962 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 326297006963 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 326297006964 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 326297006965 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 326297006966 ligand binding site [chemical binding]; other site 326297006967 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 326297006968 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 326297006969 dimer interface [polypeptide binding]; other site 326297006970 catalytic site [active] 326297006971 putative active site [active] 326297006972 putative substrate binding site [chemical binding]; other site 326297006973 peroxidase; Provisional; Region: PRK15000 326297006974 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 326297006975 dimer interface [polypeptide binding]; other site 326297006976 decamer (pentamer of dimers) interface [polypeptide binding]; other site 326297006977 catalytic triad [active] 326297006978 peroxidatic and resolving cysteines [active] 326297006979 Predicted permease [General function prediction only]; Region: COG2056 326297006980 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 326297006981 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 326297006982 active site 326297006983 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 326297006984 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 326297006985 dimerization interface [polypeptide binding]; other site 326297006986 putative ATP binding site [chemical binding]; other site 326297006987 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 326297006988 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 326297006989 active site 326297006990 substrate binding site [chemical binding]; other site 326297006991 cosubstrate binding site; other site 326297006992 catalytic site [active] 326297006993 UMP phosphatase; Provisional; Region: PRK10444 326297006994 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 326297006995 active site 326297006996 motif I; other site 326297006997 motif II; other site 326297006998 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 326297006999 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 326297007000 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 326297007001 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 326297007002 PA/protease or protease-like domain interface [polypeptide binding]; other site 326297007003 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 326297007004 metal binding site [ion binding]; metal-binding site 326297007005 asparagine synthetase B; Provisional; Region: asnB; PRK09431 326297007006 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 326297007007 active site 326297007008 dimer interface [polypeptide binding]; other site 326297007009 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 326297007010 Ligand Binding Site [chemical binding]; other site 326297007011 Molecular Tunnel; other site 326297007012 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 326297007013 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 326297007014 putative substrate binding pocket [chemical binding]; other site 326297007015 trimer interface [polypeptide binding]; other site 326297007016 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 326297007017 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 326297007018 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 326297007019 Coenzyme A binding pocket [chemical binding]; other site 326297007020 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 326297007021 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 326297007022 catalytic loop [active] 326297007023 iron binding site [ion binding]; other site 326297007024 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 326297007025 FAD binding pocket [chemical binding]; other site 326297007026 FAD binding motif [chemical binding]; other site 326297007027 phosphate binding motif [ion binding]; other site 326297007028 beta-alpha-beta structure motif; other site 326297007029 NAD binding pocket [chemical binding]; other site 326297007030 Predicted membrane protein [Function unknown]; Region: COG3235 326297007031 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 326297007032 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 326297007033 Ion transport protein; Region: Ion_trans; pfam00520 326297007034 Ion channel; Region: Ion_trans_2; pfam07885 326297007035 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 326297007036 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 326297007037 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 326297007038 putative metal binding site [ion binding]; other site 326297007039 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 326297007040 active site 326297007041 phosphate binding residues; other site 326297007042 catalytic residues [active] 326297007043 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 326297007044 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 326297007045 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 326297007046 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 326297007047 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 326297007048 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 326297007049 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 326297007050 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 326297007051 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 326297007052 putative inner membrane peptidase; Provisional; Region: PRK11778 326297007053 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 326297007054 tandem repeat interface [polypeptide binding]; other site 326297007055 oligomer interface [polypeptide binding]; other site 326297007056 active site residues [active] 326297007057 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 326297007058 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 326297007059 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 326297007060 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 326297007061 NAD(P) binding site [chemical binding]; other site 326297007062 active site 326297007063 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 326297007064 putative active site [active] 326297007065 Zn binding site [ion binding]; other site 326297007066 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 326297007067 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 326297007068 RNA binding surface [nucleotide binding]; other site 326297007069 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 326297007070 probable active site [active] 326297007071 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 326297007072 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 326297007073 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 326297007074 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 326297007075 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 326297007076 active site 326297007077 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 326297007078 anthranilate synthase component I; Provisional; Region: PRK13564 326297007079 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 326297007080 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 326297007081 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 326297007082 Glutamine amidotransferase class-I; Region: GATase; pfam00117 326297007083 glutamine binding [chemical binding]; other site 326297007084 catalytic triad [active] 326297007085 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 326297007086 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 326297007087 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 326297007088 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 326297007089 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 326297007090 active site 326297007091 ribulose/triose binding site [chemical binding]; other site 326297007092 phosphate binding site [ion binding]; other site 326297007093 substrate (anthranilate) binding pocket [chemical binding]; other site 326297007094 product (indole) binding pocket [chemical binding]; other site 326297007095 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 326297007096 active site 326297007097 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 326297007098 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 326297007099 pyridoxal 5'-phosphate binding site [chemical binding]; other site 326297007100 catalytic residue [active] 326297007101 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 326297007102 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 326297007103 substrate binding site [chemical binding]; other site 326297007104 active site 326297007105 catalytic residues [active] 326297007106 heterodimer interface [polypeptide binding]; other site 326297007107 Isochorismatase family; Region: Isochorismatase; pfam00857 326297007108 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 326297007109 catalytic triad [active] 326297007110 conserved cis-peptide bond; other site 326297007111 intracellular septation protein A; Reviewed; Region: PRK00259 326297007112 YciI-like protein; Reviewed; Region: PRK11370 326297007113 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 326297007114 putative catalytic site [active] 326297007115 putative phosphate binding site [ion binding]; other site 326297007116 active site 326297007117 metal binding site A [ion binding]; metal-binding site 326297007118 DNA binding site [nucleotide binding] 326297007119 putative AP binding site [nucleotide binding]; other site 326297007120 putative metal binding site B [ion binding]; other site 326297007121 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 326297007122 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 326297007123 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 326297007124 dimer interface [polypeptide binding]; other site 326297007125 putative CheW interface [polypeptide binding]; other site 326297007126 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 326297007127 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 326297007128 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 326297007129 Domain of unknown function (DUF4250); Region: DUF4250; pfam14056 326297007130 DNA topoisomerase III; Provisional; Region: PRK07726 326297007131 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 326297007132 active site 326297007133 putative interdomain interaction site [polypeptide binding]; other site 326297007134 putative metal-binding site [ion binding]; other site 326297007135 putative nucleotide binding site [chemical binding]; other site 326297007136 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 326297007137 domain I; other site 326297007138 DNA binding groove [nucleotide binding] 326297007139 phosphate binding site [ion binding]; other site 326297007140 domain II; other site 326297007141 domain III; other site 326297007142 nucleotide binding site [chemical binding]; other site 326297007143 catalytic site [active] 326297007144 domain IV; other site 326297007145 amidophosphoribosyltransferase; Provisional; Region: PRK09246 326297007146 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 326297007147 active site 326297007148 tetramer interface [polypeptide binding]; other site 326297007149 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 326297007150 active site 326297007151 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 326297007152 Colicin V production protein; Region: Colicin_V; cl00567 326297007153 cell division protein DedD; Provisional; Region: PRK11633 326297007154 Sporulation related domain; Region: SPOR; pfam05036 326297007155 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 326297007156 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 326297007157 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 326297007158 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 326297007159 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 326297007160 dimerization interface 3.5A [polypeptide binding]; other site 326297007161 active site 326297007162 FimV N-terminal domain; Region: FimV_core; TIGR03505 326297007163 Regulator of replication initiation timing [Replication, recombination, and repair]; Region: COG4467; cl01853 326297007164 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 326297007165 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 326297007166 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 326297007167 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 326297007168 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 326297007169 ligand binding site [chemical binding]; other site 326297007170 NAD binding site [chemical binding]; other site 326297007171 catalytic site [active] 326297007172 homodimer interface [polypeptide binding]; other site 326297007173 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 326297007174 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 326297007175 dimer interface [polypeptide binding]; other site 326297007176 active site 326297007177 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 326297007178 hydroxyglutarate oxidase; Provisional; Region: PRK11728 326297007179 YfcL protein; Region: YfcL; pfam08891 326297007180 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 326297007181 ATP-NAD kinase; Region: NAD_kinase; pfam01513 326297007182 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 326297007183 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 326297007184 putative substrate translocation pore; other site 326297007185 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 326297007186 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 326297007187 Tetramer interface [polypeptide binding]; other site 326297007188 active site 326297007189 FMN-binding site [chemical binding]; other site 326297007190 HemK family putative methylases; Region: hemK_fam; TIGR00536 326297007191 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 326297007192 S-adenosylmethionine binding site [chemical binding]; other site 326297007193 hypothetical protein; Provisional; Region: PRK04946 326297007194 Smr domain; Region: Smr; pfam01713 326297007195 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 326297007196 catalytic core [active] 326297007197 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 326297007198 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 326297007199 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 326297007200 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 326297007201 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 326297007202 PAS fold; Region: PAS_3; pfam08447 326297007203 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 326297007204 PAS domain; Region: PAS_9; pfam13426 326297007205 putative active site [active] 326297007206 heme pocket [chemical binding]; other site 326297007207 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297007208 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297007209 metal binding site [ion binding]; metal-binding site 326297007210 active site 326297007211 I-site; other site 326297007212 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 326297007213 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 326297007214 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 326297007215 substrate binding site [chemical binding]; other site 326297007216 oxyanion hole (OAH) forming residues; other site 326297007217 trimer interface [polypeptide binding]; other site 326297007218 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 326297007219 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 326297007220 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 326297007221 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 326297007222 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 326297007223 dimer interface [polypeptide binding]; other site 326297007224 active site 326297007225 MoxR-like ATPases [General function prediction only]; Region: COG0714 326297007226 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 326297007227 Walker A motif; other site 326297007228 ATP binding site [chemical binding]; other site 326297007229 Walker B motif; other site 326297007230 arginine finger; other site 326297007231 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 326297007232 Protein of unknown function DUF58; Region: DUF58; pfam01882 326297007233 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 326297007234 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 326297007235 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 326297007236 metal ion-dependent adhesion site (MIDAS); other site 326297007237 von Willebrand factor type A domain; Region: VWA_2; pfam13519 326297007238 metal ion-dependent adhesion site (MIDAS); other site 326297007239 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 326297007240 binding surface 326297007241 TPR motif; other site 326297007242 Tetratricopeptide repeat; Region: TPR_16; pfam13432 326297007243 Oxygen tolerance; Region: BatD; pfam13584 326297007244 RNA polymerase sigma factor; Provisional; Region: PRK12517 326297007245 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 326297007246 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 326297007247 DNA binding residues [nucleotide binding] 326297007248 Protein of unknown function (DUF3379); Region: DUF3379; pfam11859 326297007249 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 326297007250 Na binding site [ion binding]; other site 326297007251 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 326297007252 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 326297007253 active site 326297007254 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 326297007255 HlyD family secretion protein; Region: HlyD_2; pfam12700 326297007256 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 326297007257 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 326297007258 Protein export membrane protein; Region: SecD_SecF; cl14618 326297007259 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 326297007260 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 326297007261 active site residue [active] 326297007262 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 326297007263 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 326297007264 active site 326297007265 catalytic residues [active] 326297007266 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 326297007267 PA/subtilisin-like domain interface [polypeptide binding]; other site 326297007268 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 326297007269 catalytic residues [active] 326297007270 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 326297007271 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 326297007272 YaeQ protein; Region: YaeQ; cl01913 326297007273 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 326297007274 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 326297007275 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 326297007276 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 326297007277 active site residue [active] 326297007278 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 326297007279 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 326297007280 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 326297007281 Protein export membrane protein; Region: SecD_SecF; pfam02355 326297007282 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 326297007283 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 326297007284 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 326297007285 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 326297007286 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 326297007287 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 326297007288 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 326297007289 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 326297007290 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 326297007291 Protein of unknown function, DUF479; Region: DUF479; cl01203 326297007292 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 326297007293 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 326297007294 catalytic residues [active] 326297007295 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 326297007296 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 326297007297 active site 326297007298 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 326297007299 serine/threonine transporter SstT; Provisional; Region: PRK13628 326297007300 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 326297007301 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 326297007302 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 326297007303 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297007304 active site 326297007305 phosphorylation site [posttranslational modification] 326297007306 intermolecular recognition site; other site 326297007307 dimerization interface [polypeptide binding]; other site 326297007308 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 326297007309 PLD-like domain; Region: PLDc_2; pfam13091 326297007310 putative active site [active] 326297007311 catalytic site [active] 326297007312 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 326297007313 PLD-like domain; Region: PLDc_2; pfam13091 326297007314 putative active site [active] 326297007315 catalytic site [active] 326297007316 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 326297007317 active site 326297007318 catalytic residues [active] 326297007319 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 326297007320 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 326297007321 DNA binding site [nucleotide binding] 326297007322 active site 326297007323 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 326297007324 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 326297007325 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 326297007326 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 326297007327 AlkA N-terminal domain; Region: AlkA_N; pfam06029 326297007328 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 326297007329 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 326297007330 minor groove reading motif; other site 326297007331 helix-hairpin-helix signature motif; other site 326297007332 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 326297007333 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 326297007334 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 326297007335 Walker A/P-loop; other site 326297007336 ATP binding site [chemical binding]; other site 326297007337 Q-loop/lid; other site 326297007338 ABC transporter signature motif; other site 326297007339 Walker B; other site 326297007340 D-loop; other site 326297007341 H-loop/switch region; other site 326297007342 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 326297007343 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 326297007344 active site 326297007345 HIGH motif; other site 326297007346 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 326297007347 active site 326297007348 KMSKS motif; other site 326297007349 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 326297007350 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 326297007351 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 326297007352 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 326297007353 DctM-like transporters; Region: DctM; pfam06808 326297007354 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 326297007355 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 326297007356 dimer interface [polypeptide binding]; other site 326297007357 phosphorylation site [posttranslational modification] 326297007358 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 326297007359 ATP binding site [chemical binding]; other site 326297007360 Mg2+ binding site [ion binding]; other site 326297007361 G-X-G motif; other site 326297007362 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 326297007363 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297007364 active site 326297007365 phosphorylation site [posttranslational modification] 326297007366 intermolecular recognition site; other site 326297007367 dimerization interface [polypeptide binding]; other site 326297007368 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 326297007369 Walker A motif; other site 326297007370 ATP binding site [chemical binding]; other site 326297007371 Walker B motif; other site 326297007372 arginine finger; other site 326297007373 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 326297007374 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 326297007375 Major Facilitator Superfamily; Region: MFS_1; pfam07690 326297007376 putative substrate translocation pore; other site 326297007377 Transcriptional regulator [Transcription]; Region: LysR; COG0583 326297007378 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297007379 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 326297007380 dimerization interface [polypeptide binding]; other site 326297007381 Peptidase S8 family domain in Protein convertases; Region: Peptidases_S8_Protein_convertases_Kexins_Furin-lik; cd04059 326297007382 calcium binding site 1 [ion binding]; other site 326297007383 active site 326297007384 catalytic triad [active] 326297007385 calcium binding site 2 [ion binding]; other site 326297007386 calcium binding site 3 [ion binding]; other site 326297007387 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 326297007388 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 326297007389 maleylacetoacetate isomerase; Region: maiA; TIGR01262 326297007390 C-terminal domain interface [polypeptide binding]; other site 326297007391 GSH binding site (G-site) [chemical binding]; other site 326297007392 putative dimer interface [polypeptide binding]; other site 326297007393 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 326297007394 dimer interface [polypeptide binding]; other site 326297007395 N-terminal domain interface [polypeptide binding]; other site 326297007396 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 326297007397 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 326297007398 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 326297007399 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 326297007400 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 326297007401 putative aromatic amino acid binding site; other site 326297007402 PAS domain; Region: PAS; smart00091 326297007403 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 326297007404 Walker A motif; other site 326297007405 ATP binding site [chemical binding]; other site 326297007406 Walker B motif; other site 326297007407 arginine finger; other site 326297007408 GIYX(10-11)YIG family of class I homing endonucleases C-terminus (GIY-YIG_Cterm). Homing endonucleases promote the mobility of intron or intein by recognizing and cleaving a homologous allele that lacks the sequence. They catalyze a double-strand break...; Region: GIY-YIG_Cterm; cl11508 326297007409 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 326297007410 aromatic arch; other site 326297007411 DCoH dimer interaction site [polypeptide binding]; other site 326297007412 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 326297007413 DCoH tetramer interaction site [polypeptide binding]; other site 326297007414 substrate binding site [chemical binding]; other site 326297007415 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 326297007416 cofactor binding site; other site 326297007417 metal binding site [ion binding]; metal-binding site 326297007418 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 326297007419 active site 326297007420 tetramer interface; other site 326297007421 UDP-glucose 4-epimerase; Region: PLN02240 326297007422 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 326297007423 NAD binding site [chemical binding]; other site 326297007424 homodimer interface [polypeptide binding]; other site 326297007425 active site 326297007426 substrate binding site [chemical binding]; other site 326297007427 ferredoxin-type protein; Provisional; Region: PRK10194 326297007428 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 326297007429 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 326297007430 Transcriptional regulator [Transcription]; Region: LysR; COG0583 326297007431 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297007432 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 326297007433 dimerization interface [polypeptide binding]; other site 326297007434 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 326297007435 Protein of unknown function (DUF2982); Region: DUF2982; pfam11201 326297007436 Uncharacterized conserved protein [Function unknown]; Region: COG1434 326297007437 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 326297007438 putative active site [active] 326297007439 fructokinase; Reviewed; Region: PRK09557 326297007440 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 326297007441 nucleotide binding site [chemical binding]; other site 326297007442 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 326297007443 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 326297007444 active site 326297007445 putative hydrolase; Validated; Region: PRK09248 326297007446 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 326297007447 active site 326297007448 NlpE N-terminal domain; Region: NlpE; pfam04170 326297007449 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 326297007450 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 326297007451 putative NAD(P) binding site [chemical binding]; other site 326297007452 active site 326297007453 putative substrate binding site [chemical binding]; other site 326297007454 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 326297007455 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 326297007456 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 326297007457 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 326297007458 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 326297007459 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 326297007460 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 326297007461 NADP binding site [chemical binding]; other site 326297007462 active site 326297007463 putative substrate binding site [chemical binding]; other site 326297007464 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 326297007465 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 326297007466 substrate binding site; other site 326297007467 tetramer interface; other site 326297007468 four helix bundle protein; Region: TIGR02436 326297007469 hypothetical protein; Reviewed; Region: PRK12275 326297007470 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 326297007471 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 326297007472 NAD binding site [chemical binding]; other site 326297007473 substrate binding site [chemical binding]; other site 326297007474 homodimer interface [polypeptide binding]; other site 326297007475 active site 326297007476 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 326297007477 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 326297007478 active site 326297007479 substrate binding site [chemical binding]; other site 326297007480 metal binding site [ion binding]; metal-binding site 326297007481 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 326297007482 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 326297007483 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 326297007484 NAD(P) binding site [chemical binding]; other site 326297007485 homodimer interface [polypeptide binding]; other site 326297007486 substrate binding site [chemical binding]; other site 326297007487 active site 326297007488 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 326297007489 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 326297007490 putative trimer interface [polypeptide binding]; other site 326297007491 putative CoA binding site [chemical binding]; other site 326297007492 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_4; cd08651 326297007493 putative active site [active] 326297007494 putative substrate binding site [chemical binding]; other site 326297007495 putative cosubstrate binding site; other site 326297007496 catalytic site [active] 326297007497 Carboxy-terminal domain of Formyltransferase and similar domains; Region: FMT_C_like; cl14785 326297007498 Bacterial sugar transferase; Region: Bac_transf; pfam02397 326297007499 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 326297007500 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 326297007501 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 326297007502 NAD(P) binding site [chemical binding]; other site 326297007503 active site 326297007504 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 326297007505 NAD(P) binding site [chemical binding]; other site 326297007506 active site 326297007507 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 326297007508 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 326297007509 trimer interface [polypeptide binding]; other site 326297007510 active site 326297007511 UDP-GlcNAc binding site [chemical binding]; other site 326297007512 lipid binding site [chemical binding]; lipid-binding site 326297007513 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 326297007514 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 326297007515 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 326297007516 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 326297007517 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 326297007518 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 326297007519 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 326297007520 inhibitor-cofactor binding pocket; inhibition site 326297007521 pyridoxal 5'-phosphate binding site [chemical binding]; other site 326297007522 catalytic residue [active] 326297007523 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 326297007524 putative CoA binding site [chemical binding]; other site 326297007525 putative trimer interface [polypeptide binding]; other site 326297007526 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 326297007527 putative trimer interface [polypeptide binding]; other site 326297007528 putative active site [active] 326297007529 putative substrate binding site [chemical binding]; other site 326297007530 putative CoA binding site [chemical binding]; other site 326297007531 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 326297007532 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 326297007533 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 326297007534 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 326297007535 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 326297007536 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 326297007537 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 326297007538 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 326297007539 active site 326297007540 homodimer interface [polypeptide binding]; other site 326297007541 Chain length determinant protein; Region: Wzz; pfam02706 326297007542 hypothetical protein; Reviewed; Region: PRK12275 326297007543 four helix bundle protein; Region: TIGR02436 326297007544 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 326297007545 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 326297007546 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 326297007547 SLBB domain; Region: SLBB; pfam10531 326297007548 SLBB domain; Region: SLBB; pfam10531 326297007549 SLBB domain; Region: SLBB; pfam10531 326297007550 SLBB domain; Region: SLBB; pfam10531 326297007551 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 326297007552 SLBB domain; Region: SLBB; pfam10531 326297007553 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 326297007554 transcriptional activator RfaH; Region: RfaH; TIGR01955 326297007555 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 326297007556 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 326297007557 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 326297007558 putative substrate translocation pore; other site 326297007559 Response regulator receiver domain; Region: Response_reg; pfam00072 326297007560 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297007561 active site 326297007562 phosphorylation site [posttranslational modification] 326297007563 intermolecular recognition site; other site 326297007564 dimerization interface [polypeptide binding]; other site 326297007565 VacJ like lipoprotein; Region: VacJ; cl01073 326297007566 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 326297007567 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 326297007568 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 326297007569 putative CheA interaction surface; other site 326297007570 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 326297007571 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 326297007572 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 326297007573 P-loop; other site 326297007574 Magnesium ion binding site [ion binding]; other site 326297007575 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 326297007576 Magnesium ion binding site [ion binding]; other site 326297007577 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 326297007578 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297007579 active site 326297007580 phosphorylation site [posttranslational modification] 326297007581 intermolecular recognition site; other site 326297007582 CheB methylesterase; Region: CheB_methylest; pfam01339 326297007583 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 326297007584 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 326297007585 putative binding surface; other site 326297007586 active site 326297007587 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 326297007588 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 326297007589 ATP binding site [chemical binding]; other site 326297007590 Mg2+ binding site [ion binding]; other site 326297007591 G-X-G motif; other site 326297007592 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 326297007593 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 326297007594 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 326297007595 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297007596 active site 326297007597 phosphorylation site [posttranslational modification] 326297007598 intermolecular recognition site; other site 326297007599 dimerization interface [polypeptide binding]; other site 326297007600 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 326297007601 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 326297007602 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 326297007603 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 326297007604 DNA binding residues [nucleotide binding] 326297007605 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 326297007606 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 326297007607 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 326297007608 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 326297007609 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 326297007610 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 326297007611 FHIPEP family; Region: FHIPEP; pfam00771 326297007612 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 326297007613 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 326297007614 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 326297007615 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 326297007616 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 326297007617 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 326297007618 flagellar motor switch protein; Validated; Region: fliN; PRK08983 326297007619 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 326297007620 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 326297007621 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 326297007622 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 326297007623 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 326297007624 Flagellar FliJ protein; Region: FliJ; pfam02050 326297007625 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08972 326297007626 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 326297007627 Walker A motif/ATP binding site; other site 326297007628 Walker B motif; other site 326297007629 flagellar assembly protein H; Validated; Region: fliH; PRK05687 326297007630 Flagellar assembly protein FliH; Region: FliH; pfam02108 326297007631 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 326297007632 MgtE intracellular N domain; Region: MgtE_N; smart00924 326297007633 FliG C-terminal domain; Region: FliG_C; pfam01706 326297007634 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 326297007635 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 326297007636 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 326297007637 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 326297007638 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 326297007639 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297007640 active site 326297007641 phosphorylation site [posttranslational modification] 326297007642 intermolecular recognition site; other site 326297007643 dimerization interface [polypeptide binding]; other site 326297007644 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 326297007645 Walker A motif; other site 326297007646 ATP binding site [chemical binding]; other site 326297007647 Walker B motif; other site 326297007648 arginine finger; other site 326297007649 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 326297007650 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 326297007651 PAS domain; Region: PAS; smart00091 326297007652 putative active site [active] 326297007653 heme pocket [chemical binding]; other site 326297007654 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 326297007655 dimer interface [polypeptide binding]; other site 326297007656 phosphorylation site [posttranslational modification] 326297007657 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 326297007658 ATP binding site [chemical binding]; other site 326297007659 G-X-G motif; other site 326297007660 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 326297007661 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 326297007662 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 326297007663 Walker A motif; other site 326297007664 ATP binding site [chemical binding]; other site 326297007665 Walker B motif; other site 326297007666 arginine finger; other site 326297007667 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 326297007668 flagellar protein FliS; Validated; Region: fliS; PRK05685 326297007669 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 326297007670 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 326297007671 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 326297007672 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 326297007673 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 326297007674 FlaG protein; Region: FlaG; pfam03646 326297007675 flagellin; Provisional; Region: PRK12802 326297007676 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 326297007677 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 326297007678 flagellin; Provisional; Region: PRK12802 326297007679 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 326297007680 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 326297007681 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 326297007682 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 326297007683 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 326297007684 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08871 326297007685 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 326297007686 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 326297007687 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 326297007688 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 326297007689 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 326297007690 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 326297007691 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 326297007692 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 326297007693 Flagellar L-ring protein; Region: FlgH; pfam02107 326297007694 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 326297007695 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 326297007696 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 326297007697 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 326297007698 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 326297007699 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 326297007700 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 326297007701 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 326297007702 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 326297007703 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 326297007704 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 326297007705 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 326297007706 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12631 326297007707 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 326297007708 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 326297007709 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12625 326297007710 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 326297007711 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 326297007712 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 326297007713 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 326297007714 S-adenosylmethionine binding site [chemical binding]; other site 326297007715 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 326297007716 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 326297007717 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297007718 active site 326297007719 phosphorylation site [posttranslational modification] 326297007720 intermolecular recognition site; other site 326297007721 dimerization interface [polypeptide binding]; other site 326297007722 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 326297007723 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 326297007724 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 326297007725 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 326297007726 FlgN protein; Region: FlgN; pfam05130 326297007727 LPP20 lipoprotein; Region: LPP20; cl15824 326297007728 rod shape-determining protein MreC; Provisional; Region: PRK13922 326297007729 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 326297007730 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 326297007731 dimerization interface [polypeptide binding]; other site 326297007732 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 326297007733 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 326297007734 dimer interface [polypeptide binding]; other site 326297007735 putative CheW interface [polypeptide binding]; other site 326297007736 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 326297007737 NAD(P) binding site [chemical binding]; other site 326297007738 homodimer interface [polypeptide binding]; other site 326297007739 substrate binding site [chemical binding]; other site 326297007740 active site 326297007741 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 326297007742 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 326297007743 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 326297007744 catalytic residue [active] 326297007745 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 326297007746 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 326297007747 NeuB family; Region: NeuB; pfam03102 326297007748 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 326297007749 NeuB binding interface [polypeptide binding]; other site 326297007750 putative substrate binding site [chemical binding]; other site 326297007751 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 326297007752 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 326297007753 active site 326297007754 homodimer interface [polypeptide binding]; other site 326297007755 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 326297007756 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 326297007757 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain associated with the NTP (Nucleotidyl transferase) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently...; Region: CBS_pair_NTP_transferase_assoc; cd04607 326297007758 FOG: CBS domain [General function prediction only]; Region: COG0517 326297007759 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 326297007760 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 326297007761 Substrate binding site; other site 326297007762 metal-binding site 326297007763 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 326297007764 ligand binding site; other site 326297007765 tetramer interface; other site 326297007766 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 326297007767 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 326297007768 binding surface 326297007769 TPR motif; other site 326297007770 Protein of unknown function (DUF2947); Region: DUF2947; pfam11163 326297007771 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 326297007772 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 326297007773 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 326297007774 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 326297007775 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 326297007776 HlyD family secretion protein; Region: HlyD_3; pfam13437 326297007777 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 326297007778 Protein of unknown function (DUF465); Region: DUF465; pfam04325 326297007779 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 326297007780 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 326297007781 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 326297007782 dimer interface [polypeptide binding]; other site 326297007783 putative CheW interface [polypeptide binding]; other site 326297007784 TfoX C-terminal domain; Region: TfoX_C; pfam04994 326297007785 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 326297007786 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 326297007787 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 326297007788 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 326297007789 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 326297007790 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 326297007791 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 326297007792 dimerization interface [polypeptide binding]; other site 326297007793 ATP binding site [chemical binding]; other site 326297007794 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 326297007795 dimerization interface [polypeptide binding]; other site 326297007796 ATP binding site [chemical binding]; other site 326297007797 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 326297007798 putative active site [active] 326297007799 catalytic triad [active] 326297007800 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 326297007801 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 326297007802 substrate binding pocket [chemical binding]; other site 326297007803 membrane-bound complex binding site; other site 326297007804 hinge residues; other site 326297007805 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 326297007806 N-acetyl-D-glucosamine binding site [chemical binding]; other site 326297007807 catalytic residue [active] 326297007808 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 326297007809 nucleoside/Zn binding site; other site 326297007810 dimer interface [polypeptide binding]; other site 326297007811 catalytic motif [active] 326297007812 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297007813 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297007814 metal binding site [ion binding]; metal-binding site 326297007815 active site 326297007816 I-site; other site 326297007817 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_6; cd07242 326297007818 putative dimer interface [polypeptide binding]; other site 326297007819 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 326297007820 ligand binding site [chemical binding]; other site 326297007821 Zn binding site [ion binding]; other site 326297007822 GMP synthase; Reviewed; Region: guaA; PRK00074 326297007823 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 326297007824 AMP/PPi binding site [chemical binding]; other site 326297007825 candidate oxyanion hole; other site 326297007826 catalytic triad [active] 326297007827 potential glutamine specificity residues [chemical binding]; other site 326297007828 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 326297007829 ATP Binding subdomain [chemical binding]; other site 326297007830 Ligand Binding sites [chemical binding]; other site 326297007831 Dimerization subdomain; other site 326297007832 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 326297007833 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 326297007834 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 326297007835 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 326297007836 active site 326297007837 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 326297007838 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 326297007839 generic binding surface II; other site 326297007840 generic binding surface I; other site 326297007841 GTP-binding protein Der; Reviewed; Region: PRK00093 326297007842 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 326297007843 G1 box; other site 326297007844 GTP/Mg2+ binding site [chemical binding]; other site 326297007845 Switch I region; other site 326297007846 G2 box; other site 326297007847 Switch II region; other site 326297007848 G3 box; other site 326297007849 G4 box; other site 326297007850 G5 box; other site 326297007851 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 326297007852 G1 box; other site 326297007853 GTP/Mg2+ binding site [chemical binding]; other site 326297007854 Switch I region; other site 326297007855 G2 box; other site 326297007856 G3 box; other site 326297007857 Switch II region; other site 326297007858 G4 box; other site 326297007859 G5 box; other site 326297007860 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 326297007861 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 326297007862 Trp docking motif [polypeptide binding]; other site 326297007863 active site 326297007864 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 326297007865 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 326297007866 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 326297007867 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 326297007868 dimer interface [polypeptide binding]; other site 326297007869 motif 1; other site 326297007870 active site 326297007871 motif 2; other site 326297007872 motif 3; other site 326297007873 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 326297007874 anticodon binding site; other site 326297007875 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 326297007876 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 326297007877 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 326297007878 cytoskeletal protein RodZ; Provisional; Region: PRK10856 326297007879 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 326297007880 non-specific DNA binding site [nucleotide binding]; other site 326297007881 salt bridge; other site 326297007882 sequence-specific DNA binding site [nucleotide binding]; other site 326297007883 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 326297007884 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 326297007885 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 326297007886 binding surface 326297007887 TPR motif; other site 326297007888 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 326297007889 binding surface 326297007890 TPR motif; other site 326297007891 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 326297007892 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 326297007893 FeS/SAM binding site; other site 326297007894 Domain of unknown function DUF21; Region: DUF21; pfam01595 326297007895 FOG: CBS domain [General function prediction only]; Region: COG0517 326297007896 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 326297007897 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 326297007898 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 326297007899 active site 326297007900 metal binding site [ion binding]; metal-binding site 326297007901 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 326297007902 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 326297007903 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 326297007904 Coenzyme A binding pocket [chemical binding]; other site 326297007905 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 326297007906 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 326297007907 Coenzyme A binding pocket [chemical binding]; other site 326297007908 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 326297007909 ParA-like protein; Provisional; Region: PHA02518 326297007910 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 326297007911 P-loop; other site 326297007912 Magnesium ion binding site [ion binding]; other site 326297007913 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 326297007914 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 326297007915 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297007916 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297007917 metal binding site [ion binding]; metal-binding site 326297007918 active site 326297007919 I-site; other site 326297007920 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 326297007921 SnoaL-like domain; Region: SnoaL_3; pfam13474 326297007922 HDOD domain; Region: HDOD; pfam08668 326297007923 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 326297007924 isocitrate lyase; Provisional; Region: PRK15063 326297007925 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 326297007926 tetramer interface [polypeptide binding]; other site 326297007927 active site 326297007928 Mg2+/Mn2+ binding site [ion binding]; other site 326297007929 malate synthase A; Region: malate_syn_A; TIGR01344 326297007930 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 326297007931 active site 326297007932 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297007933 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297007934 metal binding site [ion binding]; metal-binding site 326297007935 active site 326297007936 I-site; other site 326297007937 Subunit A of Class III extradiol dioxygenases; Region: Extradiol_Dioxygenase_3A_like; cl06673 326297007938 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 326297007939 active site 326297007940 homodimer interface [polypeptide binding]; other site 326297007941 SAM binding site [chemical binding]; other site 326297007942 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 326297007943 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 326297007944 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 326297007945 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 326297007946 putative coenzyme Q binding site [chemical binding]; other site 326297007947 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 326297007948 SmpB-tmRNA interface; other site 326297007949 Transcriptional regulator [Transcription]; Region: LysR; COG0583 326297007950 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297007951 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 326297007952 dimerization interface [polypeptide binding]; other site 326297007953 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 326297007954 putative substrate translocation pore; other site 326297007955 Major Facilitator Superfamily; Region: MFS_1; pfam07690 326297007956 isoaspartyl dipeptidase; Provisional; Region: PRK10657 326297007957 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 326297007958 active site 326297007959 hypothetical protein; Provisional; Region: PRK11588 326297007960 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 326297007961 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 326297007962 N-terminal plug; other site 326297007963 ligand-binding site [chemical binding]; other site 326297007964 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 326297007965 proposed catalytic triad [active] 326297007966 active site nucleophile [active] 326297007967 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 326297007968 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 326297007969 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 326297007970 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 326297007971 dimer interface [polypeptide binding]; other site 326297007972 putative CheW interface [polypeptide binding]; other site 326297007973 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 326297007974 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297007975 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 326297007976 active site 326297007977 phosphorylation site [posttranslational modification] 326297007978 intermolecular recognition site; other site 326297007979 dimerization interface [polypeptide binding]; other site 326297007980 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 326297007981 DNA binding residues [nucleotide binding] 326297007982 dimerization interface [polypeptide binding]; other site 326297007983 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 326297007984 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 326297007985 dimer interface [polypeptide binding]; other site 326297007986 phosphorylation site [posttranslational modification] 326297007987 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 326297007988 ATP binding site [chemical binding]; other site 326297007989 G-X-G motif; other site 326297007990 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 326297007991 L-aspartate oxidase; Provisional; Region: PRK06175 326297007992 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 326297007993 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 326297007994 heme-binding residues [chemical binding]; other site 326297007995 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 326297007996 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 326297007997 eyelet of channel; other site 326297007998 trimer interface [polypeptide binding]; other site 326297007999 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 326297008000 DEAD-like helicases superfamily; Region: DEXDc; smart00487 326297008001 ATP binding site [chemical binding]; other site 326297008002 Mg++ binding site [ion binding]; other site 326297008003 motif III; other site 326297008004 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 326297008005 nucleotide binding region [chemical binding]; other site 326297008006 ATP-binding site [chemical binding]; other site 326297008007 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 326297008008 PAS domain; Region: PAS_9; pfam13426 326297008009 putative active site [active] 326297008010 heme pocket [chemical binding]; other site 326297008011 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 326297008012 PAS domain; Region: PAS_9; pfam13426 326297008013 putative active site [active] 326297008014 heme pocket [chemical binding]; other site 326297008015 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297008016 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297008017 metal binding site [ion binding]; metal-binding site 326297008018 active site 326297008019 I-site; other site 326297008020 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 326297008021 AAA domain; Region: AAA_32; pfam13654 326297008022 lon-related putative ATP-dependent protease; Region: lon_rel; TIGR00764 326297008023 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 326297008024 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 326297008025 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 326297008026 FMN binding site [chemical binding]; other site 326297008027 active site 326297008028 substrate binding site [chemical binding]; other site 326297008029 catalytic residue [active] 326297008030 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 326297008031 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 326297008032 Protein of unknown function (DUF2375); Region: DUF2375; pfam09558 326297008033 hypothetical protein; Provisional; Region: PRK12378 326297008034 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 326297008035 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 326297008036 POT family; Region: PTR2; cl17359 326297008037 Transposase IS200 like; Region: Y1_Tnp; pfam01797 326297008038 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 326297008039 active site 326297008040 catalytic residues [active] 326297008041 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 326297008042 PA/protease or protease-like domain interface [polypeptide binding]; other site 326297008043 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 326297008044 catalytic residues [active] 326297008045 OsmC-like protein; Region: OsmC; cl00767 326297008046 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 326297008047 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 326297008048 structural tetrad; other site 326297008049 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 326297008050 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 326297008051 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 326297008052 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 326297008053 protein binding site [polypeptide binding]; other site 326297008054 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 326297008055 Domain interface; other site 326297008056 Peptide binding site; other site 326297008057 Active site tetrad [active] 326297008058 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 326297008059 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 326297008060 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 326297008061 protein binding site [polypeptide binding]; other site 326297008062 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 326297008063 binding surface 326297008064 TPR motif; other site 326297008065 Tetratricopeptide repeat; Region: TPR_12; pfam13424 326297008066 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297008067 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297008068 metal binding site [ion binding]; metal-binding site 326297008069 active site 326297008070 I-site; other site 326297008071 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 326297008072 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 326297008073 flap endonuclease-like protein; Provisional; Region: PRK09482 326297008074 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 326297008075 active site 326297008076 metal binding site 1 [ion binding]; metal-binding site 326297008077 putative 5' ssDNA interaction site; other site 326297008078 metal binding site 3; metal-binding site 326297008079 metal binding site 2 [ion binding]; metal-binding site 326297008080 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 326297008081 putative DNA binding site [nucleotide binding]; other site 326297008082 putative metal binding site [ion binding]; other site 326297008083 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 326297008084 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 326297008085 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 326297008086 isocitrate dehydrogenase; Provisional; Region: PRK08997 326297008087 tartrate dehydrogenase; Region: TTC; TIGR02089 326297008088 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 326297008089 active site 326297008090 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 326297008091 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 326297008092 Protein of unknown function (DUF423); Region: DUF423; pfam04241 326297008093 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 326297008094 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 326297008095 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297008096 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 326297008097 dimerization interface [polypeptide binding]; other site 326297008098 substrate binding pocket [chemical binding]; other site 326297008099 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 326297008100 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 326297008101 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 326297008102 Ligand Binding Site [chemical binding]; other site 326297008103 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 326297008104 active site residue [active] 326297008105 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 326297008106 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 326297008107 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 326297008108 ligand binding site [chemical binding]; other site 326297008109 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 326297008110 flagellar motor protein PomA; Reviewed; Region: PRK08990 326297008111 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 326297008112 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 326297008113 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 326297008114 substrate binding pocket [chemical binding]; other site 326297008115 chain length determination region; other site 326297008116 substrate-Mg2+ binding site; other site 326297008117 catalytic residues [active] 326297008118 aspartate-rich region 1; other site 326297008119 active site lid residues [active] 326297008120 aspartate-rich region 2; other site 326297008121 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 326297008122 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 326297008123 TPP-binding site; other site 326297008124 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 326297008125 PYR/PP interface [polypeptide binding]; other site 326297008126 dimer interface [polypeptide binding]; other site 326297008127 TPP binding site [chemical binding]; other site 326297008128 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 326297008129 heat shock protein GrpE; Provisional; Region: PRK14140 326297008130 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 326297008131 dimer interface [polypeptide binding]; other site 326297008132 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 326297008133 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 326297008134 LabA_like proteins; Region: LabA_like; cd06167 326297008135 putative metal binding site [ion binding]; other site 326297008136 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 326297008137 L-lactate permease; Region: Lactate_perm; cl00701 326297008138 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 326297008139 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 326297008140 FAD binding domain; Region: FAD_binding_4; pfam01565 326297008141 4Fe-4S binding domain; Region: Fer4; pfam00037 326297008142 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 326297008143 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 326297008144 Cysteine-rich domain; Region: CCG; pfam02754 326297008145 Cysteine-rich domain; Region: CCG; pfam02754 326297008146 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 326297008147 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 326297008148 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 326297008149 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 326297008150 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 326297008151 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 326297008152 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 326297008153 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 326297008154 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 326297008155 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 326297008156 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 326297008157 DEAD-like helicases superfamily; Region: DEXDc; smart00487 326297008158 ATP binding site [chemical binding]; other site 326297008159 Mg++ binding site [ion binding]; other site 326297008160 motif III; other site 326297008161 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 326297008162 nucleotide binding region [chemical binding]; other site 326297008163 ATP-binding site [chemical binding]; other site 326297008164 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 326297008165 PAS domain S-box; Region: sensory_box; TIGR00229 326297008166 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 326297008167 putative active site [active] 326297008168 heme pocket [chemical binding]; other site 326297008169 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 326297008170 PAS fold; Region: PAS_3; pfam08447 326297008171 putative active site [active] 326297008172 heme pocket [chemical binding]; other site 326297008173 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 326297008174 PAS domain; Region: PAS_9; pfam13426 326297008175 putative active site [active] 326297008176 heme pocket [chemical binding]; other site 326297008177 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297008178 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297008179 metal binding site [ion binding]; metal-binding site 326297008180 active site 326297008181 I-site; other site 326297008182 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 326297008183 glycogen synthase; Provisional; Region: glgA; PRK00654 326297008184 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 326297008185 ADP-binding pocket [chemical binding]; other site 326297008186 homodimer interface [polypeptide binding]; other site 326297008187 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 326297008188 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 326297008189 ligand binding site; other site 326297008190 oligomer interface; other site 326297008191 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 326297008192 dimer interface [polypeptide binding]; other site 326297008193 N-terminal domain interface [polypeptide binding]; other site 326297008194 sulfate 1 binding site; other site 326297008195 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 326297008196 homodimer interface [polypeptide binding]; other site 326297008197 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 326297008198 active site pocket [active] 326297008199 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 326297008200 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 326297008201 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 326297008202 active site 326297008203 catalytic site [active] 326297008204 glycogen branching enzyme; Provisional; Region: PRK05402 326297008205 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 326297008206 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 326297008207 active site 326297008208 catalytic site [active] 326297008209 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 326297008210 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 326297008211 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 326297008212 putative alcohol dehydrogenase; Provisional; Region: PRK09860 326297008213 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 326297008214 dimer interface [polypeptide binding]; other site 326297008215 active site 326297008216 metal binding site [ion binding]; metal-binding site 326297008217 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 326297008218 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 326297008219 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 326297008220 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 326297008221 Coenzyme A binding pocket [chemical binding]; other site 326297008222 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 326297008223 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 326297008224 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 326297008225 tetramer interface [polypeptide binding]; other site 326297008226 pyridoxal 5'-phosphate binding site [chemical binding]; other site 326297008227 catalytic residue [active] 326297008228 Predicted membrane protein [Function unknown]; Region: COG2860 326297008229 UPF0126 domain; Region: UPF0126; pfam03458 326297008230 UPF0126 domain; Region: UPF0126; pfam03458 326297008231 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 326297008232 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 326297008233 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 326297008234 dimer interface [polypeptide binding]; other site 326297008235 catalytic triad [active] 326297008236 peroxidatic and resolving cysteines [active] 326297008237 mechanosensitive channel MscS; Provisional; Region: PRK10334 326297008238 Conserved TM helix; Region: TM_helix; pfam05552 326297008239 Mechanosensitive ion channel; Region: MS_channel; pfam00924 326297008240 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 326297008241 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 326297008242 ligand binding site [chemical binding]; other site 326297008243 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 326297008244 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 326297008245 translation initiation factor Sui1; Validated; Region: PRK06824 326297008246 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 326297008247 putative rRNA binding site [nucleotide binding]; other site 326297008248 hypothetical protein; Validated; Region: PRK00228 326297008249 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 326297008250 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 326297008251 catalytic residues [active] 326297008252 dimer interface [polypeptide binding]; other site 326297008253 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 326297008254 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 326297008255 Walker A motif; other site 326297008256 ATP binding site [chemical binding]; other site 326297008257 Walker B motif; other site 326297008258 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 326297008259 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 326297008260 Walker A motif; other site 326297008261 ATP binding site [chemical binding]; other site 326297008262 Walker B motif; other site 326297008263 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 326297008264 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 326297008265 catalytic residue [active] 326297008266 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 326297008267 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 326297008268 YGGT family; Region: YGGT; pfam02325 326297008269 YGGT family; Region: YGGT; pfam02325 326297008270 hypothetical protein; Validated; Region: PRK05090 326297008271 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 326297008272 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 326297008273 active site 326297008274 dimerization interface [polypeptide binding]; other site 326297008275 HemN family oxidoreductase; Provisional; Region: PRK05660 326297008276 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 326297008277 FeS/SAM binding site; other site 326297008278 HemN C-terminal domain; Region: HemN_C; pfam06969 326297008279 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 326297008280 Transcriptional regulator [Transcription]; Region: LysR; COG0583 326297008281 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297008282 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 326297008283 putative effector binding pocket; other site 326297008284 dimerization interface [polypeptide binding]; other site 326297008285 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 326297008286 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 326297008287 glutaminase; Provisional; Region: PRK00971 326297008288 hypothetical protein; Provisional; Region: PRK11702 326297008289 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 326297008290 S-adenosylmethionine binding site [chemical binding]; other site 326297008291 adenine DNA glycosylase; Provisional; Region: PRK10880 326297008292 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 326297008293 minor groove reading motif; other site 326297008294 helix-hairpin-helix signature motif; other site 326297008295 substrate binding pocket [chemical binding]; other site 326297008296 active site 326297008297 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 326297008298 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 326297008299 DNA binding and oxoG recognition site [nucleotide binding] 326297008300 oxidative damage protection protein; Provisional; Region: PRK05408 326297008301 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 326297008302 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 326297008303 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 326297008304 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 326297008305 DNA binding residues [nucleotide binding] 326297008306 dimerization interface [polypeptide binding]; other site 326297008307 C factor cell-cell signaling protein; Provisional; Region: PRK09009 326297008308 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 326297008309 NAD(P) binding site [chemical binding]; other site 326297008310 active site 326297008311 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 326297008312 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 326297008313 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13021 326297008314 Protein export membrane protein; Region: SecD_SecF; cl14618 326297008315 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK12933 326297008316 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 326297008317 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 326297008318 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 326297008319 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 326297008320 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 326297008321 dimer interface [polypeptide binding]; other site 326297008322 putative CheW interface [polypeptide binding]; other site 326297008323 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 326297008324 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 326297008325 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 326297008326 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 326297008327 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 326297008328 ATP-grasp domain; Region: ATP-grasp_4; cl17255 326297008329 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 326297008330 IMP binding site; other site 326297008331 dimer interface [polypeptide binding]; other site 326297008332 interdomain contacts; other site 326297008333 partial ornithine binding site; other site 326297008334 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 326297008335 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 326297008336 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 326297008337 catalytic site [active] 326297008338 subunit interface [polypeptide binding]; other site 326297008339 dihydrodipicolinate reductase; Provisional; Region: PRK00048 326297008340 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 326297008341 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 326297008342 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 326297008343 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 326297008344 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 326297008345 Peptidase family M48; Region: Peptidase_M48; pfam01435 326297008346 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 326297008347 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 326297008348 conserved cys residue [active] 326297008349 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 326297008350 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 326297008351 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 326297008352 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 326297008353 putative C-terminal domain interface [polypeptide binding]; other site 326297008354 putative GSH binding site (G-site) [chemical binding]; other site 326297008355 putative dimer interface [polypeptide binding]; other site 326297008356 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 326297008357 dimer interface [polypeptide binding]; other site 326297008358 N-terminal domain interface [polypeptide binding]; other site 326297008359 substrate binding pocket (H-site) [chemical binding]; other site 326297008360 chaperone protein DnaJ; Provisional; Region: PRK10767 326297008361 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 326297008362 HSP70 interaction site [polypeptide binding]; other site 326297008363 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 326297008364 substrate binding site [polypeptide binding]; other site 326297008365 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 326297008366 Zn binding sites [ion binding]; other site 326297008367 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 326297008368 dimer interface [polypeptide binding]; other site 326297008369 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 326297008370 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 326297008371 nucleotide binding site [chemical binding]; other site 326297008372 EamA-like transporter family; Region: EamA; pfam00892 326297008373 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 326297008374 EamA-like transporter family; Region: EamA; pfam00892 326297008375 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 326297008376 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 326297008377 putative catalytic cysteine [active] 326297008378 gamma-glutamyl kinase; Provisional; Region: PRK05429 326297008379 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 326297008380 nucleotide binding site [chemical binding]; other site 326297008381 homotetrameric interface [polypeptide binding]; other site 326297008382 putative phosphate binding site [ion binding]; other site 326297008383 putative allosteric binding site; other site 326297008384 PUA domain; Region: PUA; pfam01472 326297008385 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 326297008386 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 326297008387 interface (dimer of trimers) [polypeptide binding]; other site 326297008388 Substrate-binding/catalytic site; other site 326297008389 Zn-binding sites [ion binding]; other site 326297008390 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 326297008391 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 326297008392 metal binding site [ion binding]; metal-binding site 326297008393 dimer interface [polypeptide binding]; other site 326297008394 Transcriptional regulator [Transcription]; Region: LysR; COG0583 326297008395 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297008396 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 326297008397 substrate binding pocket [chemical binding]; other site 326297008398 dimerization interface [polypeptide binding]; other site 326297008399 agmatine deiminase; Provisional; Region: PRK13551 326297008400 agmatine deiminase; Region: agmatine_aguA; TIGR03380 326297008401 amidase; Validated; Region: PRK06565 326297008402 Amidase; Region: Amidase; cl11426 326297008403 Amidase; Region: Amidase; cl11426 326297008404 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 326297008405 putative methyltransferase; Provisional; Region: PRK10864 326297008406 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 326297008407 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 326297008408 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 326297008409 active site 326297008410 DNA polymerase IV; Validated; Region: PRK02406 326297008411 DNA binding site [nucleotide binding] 326297008412 Cache domain; Region: Cache_1; pfam02743 326297008413 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 326297008414 dimerization interface [polypeptide binding]; other site 326297008415 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 326297008416 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 326297008417 dimer interface [polypeptide binding]; other site 326297008418 putative CheW interface [polypeptide binding]; other site 326297008419 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 326297008420 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 326297008421 heme binding site [chemical binding]; other site 326297008422 ferroxidase pore; other site 326297008423 ferroxidase diiron center [ion binding]; other site 326297008424 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 326297008425 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 326297008426 heme binding site [chemical binding]; other site 326297008427 ferroxidase pore; other site 326297008428 ferroxidase diiron center [ion binding]; other site 326297008429 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297008430 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297008431 metal binding site [ion binding]; metal-binding site 326297008432 active site 326297008433 I-site; other site 326297008434 Protein of unknown function (DUF539); Region: DUF539; cl01129 326297008435 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 326297008436 ApbE family; Region: ApbE; pfam02424 326297008437 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 326297008438 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 326297008439 FAD binding pocket [chemical binding]; other site 326297008440 FAD binding motif [chemical binding]; other site 326297008441 phosphate binding motif [ion binding]; other site 326297008442 beta-alpha-beta structure motif; other site 326297008443 NAD binding pocket [chemical binding]; other site 326297008444 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 326297008445 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 326297008446 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 326297008447 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 326297008448 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 326297008449 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 326297008450 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 326297008451 E3 interaction surface; other site 326297008452 lipoyl attachment site [posttranslational modification]; other site 326297008453 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 326297008454 S-ribosylhomocysteinase; Provisional; Region: PRK02260 326297008455 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 326297008456 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 326297008457 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 326297008458 DctM-like transporters; Region: DctM; pfam06808 326297008459 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 326297008460 BolA-like protein; Region: BolA; cl00386 326297008461 ACT domain; Region: ACT_6; pfam13740 326297008462 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 326297008463 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 326297008464 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 326297008465 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 326297008466 S-adenosylmethionine binding site [chemical binding]; other site 326297008467 glutaredoxin 2; Provisional; Region: PRK10387 326297008468 GST_N family, Glutaredoxin 2 (GRX2) subfamily; composed of bacterial proteins similar to E. coli GRX2, an atypical GRX with a molecular mass of about 24kD, compared with other GRXs which are 9-12kD in size. GRX2 adopts a GST fold containing an N-terminal...; Region: GST_N_GRX2; cd03037 326297008469 C-terminal domain interface [polypeptide binding]; other site 326297008470 GSH binding site (G-site) [chemical binding]; other site 326297008471 catalytic residues [active] 326297008472 putative dimer interface [polypeptide binding]; other site 326297008473 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 326297008474 N-terminal domain interface [polypeptide binding]; other site 326297008475 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 326297008476 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 326297008477 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 326297008478 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 326297008479 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG3056 326297008480 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 326297008481 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 326297008482 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 326297008483 substrate binding site [chemical binding]; other site 326297008484 muropeptide transporter; Reviewed; Region: ampG; PRK11902 326297008485 AmpG-like permease; Region: 2A0125; TIGR00901 326297008486 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 326297008487 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 326297008488 Predicted integral membrane protein [Function unknown]; Region: COG5652 326297008489 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 326297008490 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 326297008491 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 326297008492 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 326297008493 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 326297008494 Protein of unknown function (DUF819); Region: DUF819; cl02317 326297008495 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 326297008496 Tetratricopeptide repeat; Region: TPR_9; pfam13371 326297008497 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 326297008498 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 326297008499 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 326297008500 peptide chain release factor 1; Validated; Region: prfA; PRK00591 326297008501 This domain is found in peptide chain release factors; Region: PCRF; smart00937 326297008502 RF-1 domain; Region: RF-1; pfam00472 326297008503 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 326297008504 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 326297008505 tRNA; other site 326297008506 putative tRNA binding site [nucleotide binding]; other site 326297008507 putative NADP binding site [chemical binding]; other site 326297008508 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 326297008509 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 326297008510 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 326297008511 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 326297008512 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 326297008513 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 326297008514 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 326297008515 active site 326297008516 GTP-binding protein YchF; Reviewed; Region: PRK09601 326297008517 YchF GTPase; Region: YchF; cd01900 326297008518 G1 box; other site 326297008519 GTP/Mg2+ binding site [chemical binding]; other site 326297008520 Switch I region; other site 326297008521 G2 box; other site 326297008522 Switch II region; other site 326297008523 G3 box; other site 326297008524 G4 box; other site 326297008525 G5 box; other site 326297008526 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 326297008527 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 326297008528 putative active site [active] 326297008529 catalytic residue [active] 326297008530 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK08849 326297008531 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 326297008532 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 326297008533 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 326297008534 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 326297008535 FeS/SAM binding site; other site 326297008536 TRAM domain; Region: TRAM; pfam01938 326297008537 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 326297008538 PhoH-like protein; Region: PhoH; pfam02562 326297008539 metal-binding heat shock protein; Provisional; Region: PRK00016 326297008540 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 326297008541 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 326297008542 Transporter associated domain; Region: CorC_HlyC; smart01091 326297008543 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 326297008544 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 326297008545 putative active site [active] 326297008546 catalytic triad [active] 326297008547 putative dimer interface [polypeptide binding]; other site 326297008548 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 326297008549 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297008550 active site 326297008551 phosphorylation site [posttranslational modification] 326297008552 intermolecular recognition site; other site 326297008553 dimerization interface [polypeptide binding]; other site 326297008554 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 326297008555 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 326297008556 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 326297008557 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 326297008558 HIGH motif; other site 326297008559 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 326297008560 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 326297008561 active site 326297008562 KMSKS motif; other site 326297008563 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 326297008564 tRNA binding surface [nucleotide binding]; other site 326297008565 Lipopolysaccharide-assembly; Region: LptE; cl01125 326297008566 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 326297008567 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 326297008568 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 326297008569 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 326297008570 active site 326297008571 (T/H)XGH motif; other site 326297008572 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 326297008573 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 326297008574 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 326297008575 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 326297008576 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 326297008577 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 326297008578 Transglycosylase SLT domain; Region: SLT_2; pfam13406 326297008579 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 326297008580 N-acetyl-D-glucosamine binding site [chemical binding]; other site 326297008581 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 326297008582 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 326297008583 Sporulation related domain; Region: SPOR; pfam05036 326297008584 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 326297008585 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 326297008586 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 326297008587 hypothetical protein; Provisional; Region: PRK04998 326297008588 lipoate-protein ligase B; Provisional; Region: PRK14342 326297008589 lipoyl synthase; Provisional; Region: PRK05481 326297008590 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 326297008591 FeS/SAM binding site; other site 326297008592 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 326297008593 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 326297008594 Coenzyme A binding pocket [chemical binding]; other site 326297008595 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 326297008596 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 326297008597 dimerization interface [polypeptide binding]; other site 326297008598 DPS ferroxidase diiron center [ion binding]; other site 326297008599 ion pore; other site 326297008600 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 326297008601 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 326297008602 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 326297008603 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 326297008604 Transposase IS200 like; Region: Y1_Tnp; pfam01797 326297008605 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 326297008606 Clp amino terminal domain; Region: Clp_N; pfam02861 326297008607 Clp amino terminal domain; Region: Clp_N; pfam02861 326297008608 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 326297008609 Walker A motif; other site 326297008610 ATP binding site [chemical binding]; other site 326297008611 Walker B motif; other site 326297008612 arginine finger; other site 326297008613 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 326297008614 Walker A motif; other site 326297008615 ATP binding site [chemical binding]; other site 326297008616 Walker B motif; other site 326297008617 arginine finger; other site 326297008618 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 326297008619 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 326297008620 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 326297008621 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 326297008622 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 326297008623 RNA binding surface [nucleotide binding]; other site 326297008624 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 326297008625 active site 326297008626 Outer membrane lipoprotein; Region: YfiO; pfam13525 326297008627 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 326297008628 binding surface 326297008629 TPR motif; other site 326297008630 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 326297008631 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 326297008632 HAMP domain; Region: HAMP; pfam00672 326297008633 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 326297008634 dimer interface [polypeptide binding]; other site 326297008635 putative CheW interface [polypeptide binding]; other site 326297008636 CHASE4 domain; Region: CHASE4; pfam05228 326297008637 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297008638 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297008639 metal binding site [ion binding]; metal-binding site 326297008640 active site 326297008641 I-site; other site 326297008642 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 326297008643 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 326297008644 dimer interface [polypeptide binding]; other site 326297008645 putative CheW interface [polypeptide binding]; other site 326297008646 ornithine cyclodeaminase; Validated; Region: PRK06141 326297008647 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 326297008648 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 326297008649 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 326297008650 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 326297008651 DNA binding residues [nucleotide binding] 326297008652 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 326297008653 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 326297008654 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 326297008655 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 326297008656 RNA binding surface [nucleotide binding]; other site 326297008657 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 326297008658 active site 326297008659 uracil binding [chemical binding]; other site 326297008660 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 326297008661 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 326297008662 active site 326297008663 Zn binding site [ion binding]; other site 326297008664 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 326297008665 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 326297008666 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 326297008667 N-terminal plug; other site 326297008668 ligand-binding site [chemical binding]; other site 326297008669 Beta-lactamase; Region: Beta-lactamase; pfam00144 326297008670 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 326297008671 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 326297008672 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 326297008673 malate dehydrogenase; Provisional; Region: PRK13529 326297008674 Malic enzyme, N-terminal domain; Region: malic; pfam00390 326297008675 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 326297008676 NAD(P) binding site [chemical binding]; other site 326297008677 Protein of unknown function (DUF3069); Region: DUF3069; pfam11269 326297008678 Tetratricopeptide repeat; Region: TPR_12; pfam13424 326297008679 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 326297008680 TPR motif; other site 326297008681 binding surface 326297008682 Tetratricopeptide repeat; Region: TPR_12; pfam13424 326297008683 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297008684 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297008685 metal binding site [ion binding]; metal-binding site 326297008686 active site 326297008687 I-site; other site 326297008688 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 326297008689 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 326297008690 substrate binding pocket [chemical binding]; other site 326297008691 membrane-bound complex binding site; other site 326297008692 hinge residues; other site 326297008693 epoxyqueuosine reductase; Region: TIGR00276 326297008694 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 326297008695 Dodecin; Region: Dodecin; pfam07311 326297008696 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 326297008697 CIMS - Cobalamine-independent methonine synthase, or MetE, N-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_N_terminal_like; cd03312 326297008698 THF binding site; other site 326297008699 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 326297008700 substrate binding site [chemical binding]; other site 326297008701 THF binding site; other site 326297008702 zinc-binding site [ion binding]; other site 326297008703 Transcriptional regulator [Transcription]; Region: LysR; COG0583 326297008704 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297008705 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 326297008706 putative dimerization interface [polypeptide binding]; other site 326297008707 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 326297008708 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 326297008709 active site 326297008710 catalytic triad [active] 326297008711 oxyanion hole [active] 326297008712 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 326297008713 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 326297008714 N-terminal plug; other site 326297008715 ligand-binding site [chemical binding]; other site 326297008716 Protein of unknown function (DUF805); Region: DUF805; pfam05656 326297008717 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 326297008718 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 326297008719 MOSC domain; Region: MOSC; pfam03473 326297008720 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 326297008721 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 326297008722 FAD binding pocket [chemical binding]; other site 326297008723 FAD binding motif [chemical binding]; other site 326297008724 phosphate binding motif [ion binding]; other site 326297008725 beta-alpha-beta structure motif; other site 326297008726 NAD binding pocket [chemical binding]; other site 326297008727 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 326297008728 catalytic loop [active] 326297008729 iron binding site [ion binding]; other site 326297008730 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 326297008731 dimerization interface [polypeptide binding]; other site 326297008732 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 326297008733 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 326297008734 dimer interface [polypeptide binding]; other site 326297008735 putative CheW interface [polypeptide binding]; other site 326297008736 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 326297008737 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 326297008738 inhibitor-cofactor binding pocket; inhibition site 326297008739 pyridoxal 5'-phosphate binding site [chemical binding]; other site 326297008740 catalytic residue [active] 326297008741 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 326297008742 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 326297008743 tetramerization interface [polypeptide binding]; other site 326297008744 NAD(P) binding site [chemical binding]; other site 326297008745 catalytic residues [active] 326297008746 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 326297008747 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 326297008748 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 326297008749 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 326297008750 dimer interface [polypeptide binding]; other site 326297008751 conserved gate region; other site 326297008752 putative PBP binding loops; other site 326297008753 ABC-ATPase subunit interface; other site 326297008754 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 326297008755 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 326297008756 dimer interface [polypeptide binding]; other site 326297008757 conserved gate region; other site 326297008758 putative PBP binding loops; other site 326297008759 ABC-ATPase subunit interface; other site 326297008760 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 326297008761 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 326297008762 Walker A/P-loop; other site 326297008763 ATP binding site [chemical binding]; other site 326297008764 Q-loop/lid; other site 326297008765 ABC transporter signature motif; other site 326297008766 Walker B; other site 326297008767 D-loop; other site 326297008768 H-loop/switch region; other site 326297008769 TOBE domain; Region: TOBE_2; pfam08402 326297008770 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 326297008771 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 326297008772 putative aminotransferase; Validated; Region: PRK07480 326297008773 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 326297008774 inhibitor-cofactor binding pocket; inhibition site 326297008775 pyridoxal 5'-phosphate binding site [chemical binding]; other site 326297008776 catalytic residue [active] 326297008777 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 326297008778 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 326297008779 Peptidase C26; Region: Peptidase_C26; pfam07722 326297008780 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 326297008781 catalytic triad [active] 326297008782 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 326297008783 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 326297008784 non-specific DNA binding site [nucleotide binding]; other site 326297008785 salt bridge; other site 326297008786 sequence-specific DNA binding site [nucleotide binding]; other site 326297008787 Cupin domain; Region: Cupin_2; pfam07883 326297008788 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 326297008789 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 326297008790 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 326297008791 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 326297008792 NAD(P) binding site [chemical binding]; other site 326297008793 catalytic residues [active] 326297008794 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 326297008795 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 326297008796 inhibitor-cofactor binding pocket; inhibition site 326297008797 pyridoxal 5'-phosphate binding site [chemical binding]; other site 326297008798 catalytic residue [active] 326297008799 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 326297008800 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 326297008801 tetrameric interface [polypeptide binding]; other site 326297008802 NAD binding site [chemical binding]; other site 326297008803 catalytic residues [active] 326297008804 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 326297008805 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 326297008806 Protein of unknown function (DUF3634); Region: DUF3634; pfam12321 326297008807 FMN-binding domain; Region: FMN_bind; pfam04205 326297008808 ApbE family; Region: ApbE; pfam02424 326297008809 Predicted ATPase [General function prediction only]; Region: COG1485 326297008810 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 326297008811 Walker A/P-loop; other site 326297008812 ATP binding site [chemical binding]; other site 326297008813 Q-loop/lid; other site 326297008814 Walker B; other site 326297008815 D-loop; other site 326297008816 H-loop/switch region; other site 326297008817 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 326297008818 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 326297008819 Amidohydrolase; Region: Amidohydro_4; pfam13147 326297008820 active site 326297008821 Transcriptional regulator [Transcription]; Region: LysR; COG0583 326297008822 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297008823 LysR substrate binding domain; Region: LysR_substrate; pfam03466 326297008824 dimerization interface [polypeptide binding]; other site 326297008825 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 326297008826 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 326297008827 metal binding triad; other site 326297008828 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 326297008829 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 326297008830 metal binding triad; other site 326297008831 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 326297008832 spermidine synthase; Provisional; Region: PRK03612 326297008833 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 326297008834 S-adenosylmethionine binding site [chemical binding]; other site 326297008835 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; pfam09938 326297008836 PspA/IM30 family; Region: PspA_IM30; pfam04012 326297008837 Ion transport protein; Region: Ion_trans; pfam00520 326297008838 Ion channel; Region: Ion_trans_2; pfam07885 326297008839 Uncharacterized conserved protein [Function unknown]; Region: COG3025 326297008840 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 326297008841 putative active site [active] 326297008842 putative metal binding residues [ion binding]; other site 326297008843 signature motif; other site 326297008844 putative triphosphate binding site [ion binding]; other site 326297008845 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 326297008846 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 326297008847 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 326297008848 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 326297008849 Bacterial SH3 domain homologues; Region: SH3b; smart00287 326297008850 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 326297008851 Proline dehydrogenase; Region: Pro_dh; pfam01619 326297008852 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 326297008853 Glutamate binding site [chemical binding]; other site 326297008854 NAD binding site [chemical binding]; other site 326297008855 catalytic residues [active] 326297008856 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 326297008857 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 326297008858 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 326297008859 Walker A/P-loop; other site 326297008860 ATP binding site [chemical binding]; other site 326297008861 Q-loop/lid; other site 326297008862 ABC transporter signature motif; other site 326297008863 Walker B; other site 326297008864 D-loop; other site 326297008865 H-loop/switch region; other site 326297008866 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 326297008867 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 326297008868 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 326297008869 Walker A/P-loop; other site 326297008870 ATP binding site [chemical binding]; other site 326297008871 Q-loop/lid; other site 326297008872 ABC transporter signature motif; other site 326297008873 Walker B; other site 326297008874 D-loop; other site 326297008875 H-loop/switch region; other site 326297008876 Protein of unknown function (DUF3626); Region: DUF3626; pfam12294 326297008877 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 326297008878 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 326297008879 Multicopper oxidase; Region: Cu-oxidase; pfam00394 326297008880 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK04181 326297008881 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 326297008882 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 326297008883 Cu(I) binding site [ion binding]; other site 326297008884 Protein of unknown function (DUF461); Region: DUF461; pfam04314 326297008885 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 326297008886 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 326297008887 ligand binding site [chemical binding]; other site 326297008888 flexible hinge region; other site 326297008889 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 326297008890 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 326297008891 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 326297008892 ATP binding site [chemical binding]; other site 326297008893 Mg++ binding site [ion binding]; other site 326297008894 motif III; other site 326297008895 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 326297008896 nucleotide binding region [chemical binding]; other site 326297008897 ATP-binding site [chemical binding]; other site 326297008898 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 326297008899 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 326297008900 catalytic residues [active] 326297008901 Transcriptional regulators [Transcription]; Region: MarR; COG1846 326297008902 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 326297008903 putative DNA binding site [nucleotide binding]; other site 326297008904 dimerization interface [polypeptide binding]; other site 326297008905 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 326297008906 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 326297008907 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 326297008908 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 326297008909 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 326297008910 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 326297008911 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 326297008912 active site 326297008913 catalytic residues [active] 326297008914 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 326297008915 PA/protease or protease-like domain interface [polypeptide binding]; other site 326297008916 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 326297008917 catalytic residues [active] 326297008918 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 326297008919 MltA-interacting protein MipA; Region: MipA; cl01504 326297008920 Protein of unknown function (DUF3019); Region: DUF3019; pfam11456 326297008921 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 326297008922 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297008923 active site 326297008924 phosphorylation site [posttranslational modification] 326297008925 intermolecular recognition site; other site 326297008926 dimerization interface [polypeptide binding]; other site 326297008927 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 326297008928 DNA binding site [nucleotide binding] 326297008929 sensor protein RstB; Provisional; Region: PRK10604 326297008930 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 326297008931 dimer interface [polypeptide binding]; other site 326297008932 phosphorylation site [posttranslational modification] 326297008933 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 326297008934 ATP binding site [chemical binding]; other site 326297008935 Mg2+ binding site [ion binding]; other site 326297008936 G-X-G motif; other site 326297008937 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 326297008938 active site 326297008939 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 326297008940 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 326297008941 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 326297008942 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 326297008943 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 326297008944 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 326297008945 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 326297008946 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 326297008947 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 326297008948 putative NAD(P) binding site [chemical binding]; other site 326297008949 putative substrate binding site [chemical binding]; other site 326297008950 catalytic Zn binding site [ion binding]; other site 326297008951 structural Zn binding site [ion binding]; other site 326297008952 dimer interface [polypeptide binding]; other site 326297008953 Uncharacterized conserved protein [Function unknown]; Region: COG4925 326297008954 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 326297008955 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 326297008956 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 326297008957 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 326297008958 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 326297008959 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 326297008960 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 326297008961 DsbD alpha interface [polypeptide binding]; other site 326297008962 catalytic residues [active] 326297008963 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 326297008964 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 326297008965 catalytic residues [active] 326297008966 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 326297008967 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 326297008968 Helix-turn-helix domain; Region: HTH_18; pfam12833 326297008969 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 326297008970 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 326297008971 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 326297008972 non-specific DNA binding site [nucleotide binding]; other site 326297008973 salt bridge; other site 326297008974 sequence-specific DNA binding site [nucleotide binding]; other site 326297008975 Domain of unknown function (DUF955); Region: DUF955; cl01076 326297008976 glycine dehydrogenase; Provisional; Region: PRK05367 326297008977 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 326297008978 tetramer interface [polypeptide binding]; other site 326297008979 pyridoxal 5'-phosphate binding site [chemical binding]; other site 326297008980 catalytic residue [active] 326297008981 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 326297008982 tetramer interface [polypeptide binding]; other site 326297008983 pyridoxal 5'-phosphate binding site [chemical binding]; other site 326297008984 catalytic residue [active] 326297008985 glycine cleavage system protein H; Provisional; Region: PRK13380 326297008986 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 326297008987 lipoyl attachment site [posttranslational modification]; other site 326297008988 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 326297008989 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 326297008990 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 326297008991 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 326297008992 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 326297008993 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 326297008994 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 326297008995 Cell division protein ZapA; Region: ZapA; pfam05164 326297008996 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 326297008997 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 326297008998 Transcriptional regulator [Transcription]; Region: LysR; COG0583 326297008999 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297009000 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 326297009001 dimerization interface [polypeptide binding]; other site 326297009002 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 326297009003 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 326297009004 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 326297009005 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 326297009006 Helix-Turn-Helix DNA binding domain of MerR2-like transcription regulators; Region: HTH_MerR2; cd04769 326297009007 DNA binding residues [nucleotide binding] 326297009008 putative dimer interface [polypeptide binding]; other site 326297009009 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 326297009010 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 326297009011 FMN binding site [chemical binding]; other site 326297009012 substrate binding site [chemical binding]; other site 326297009013 putative catalytic residue [active] 326297009014 Protein of unknown function (DUF808); Region: DUF808; pfam05661 326297009015 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 326297009016 tetramer (dimer of dimers) interface [polypeptide binding]; other site 326297009017 active site 326297009018 dimer interface [polypeptide binding]; other site 326297009019 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 326297009020 DHH family; Region: DHH; pfam01368 326297009021 DHHA1 domain; Region: DHHA1; pfam02272 326297009022 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 326297009023 dimerization domain [polypeptide binding]; other site 326297009024 dimer interface [polypeptide binding]; other site 326297009025 catalytic residues [active] 326297009026 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 326297009027 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 326297009028 active site 326297009029 Int/Topo IB signature motif; other site 326297009030 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 326297009031 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 326297009032 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 326297009033 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 326297009034 DEAD-like helicases superfamily; Region: DEXDc; smart00487 326297009035 ATP binding site [chemical binding]; other site 326297009036 Mg++ binding site [ion binding]; other site 326297009037 motif III; other site 326297009038 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 326297009039 nucleotide binding region [chemical binding]; other site 326297009040 ATP-binding site [chemical binding]; other site 326297009041 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 326297009042 HlyD family secretion protein; Region: HlyD_3; pfam13437 326297009043 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 326297009044 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 326297009045 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 326297009046 FeS/SAM binding site; other site 326297009047 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 326297009048 PAS domain; Region: PAS_9; pfam13426 326297009049 putative active site [active] 326297009050 heme pocket [chemical binding]; other site 326297009051 PAS domain; Region: PAS_9; pfam13426 326297009052 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 326297009053 DNA binding site [nucleotide binding] 326297009054 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 326297009055 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 326297009056 Protein of unknown function, DUF481; Region: DUF481; pfam04338 326297009057 Uncharacterized conserved protein [Function unknown]; Region: COG0397 326297009058 hypothetical protein; Validated; Region: PRK00029 326297009059 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 326297009060 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 326297009061 intersubunit interface [polypeptide binding]; other site 326297009062 active site 326297009063 zinc binding site [ion binding]; other site 326297009064 Na+ binding site [ion binding]; other site 326297009065 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 326297009066 Phosphoglycerate kinase; Region: PGK; pfam00162 326297009067 substrate binding site [chemical binding]; other site 326297009068 hinge regions; other site 326297009069 ADP binding site [chemical binding]; other site 326297009070 catalytic site [active] 326297009071 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 326297009072 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 326297009073 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 326297009074 transketolase; Reviewed; Region: PRK12753 326297009075 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 326297009076 TPP-binding site [chemical binding]; other site 326297009077 dimer interface [polypeptide binding]; other site 326297009078 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 326297009079 PYR/PP interface [polypeptide binding]; other site 326297009080 dimer interface [polypeptide binding]; other site 326297009081 TPP binding site [chemical binding]; other site 326297009082 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 326297009083 S-adenosylmethionine synthetase; Validated; Region: PRK05250 326297009084 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 326297009085 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 326297009086 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 326297009087 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 326297009088 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 326297009089 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 326297009090 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297009091 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297009092 metal binding site [ion binding]; metal-binding site 326297009093 active site 326297009094 I-site; other site 326297009095 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297009096 META domain; Region: META; pfam03724 326297009097 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 326297009098 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 326297009099 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 326297009100 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 326297009101 Coenzyme A binding pocket [chemical binding]; other site 326297009102 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 326297009103 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 326297009104 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 326297009105 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 326297009106 serine transporter; Region: stp; TIGR00814 326297009107 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 326297009108 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 326297009109 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 326297009110 active site 326297009111 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 326297009112 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 326297009113 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 326297009114 MarR family; Region: MarR_2; pfam12802 326297009115 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 326297009116 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 326297009117 Coenzyme A binding pocket [chemical binding]; other site 326297009118 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 326297009119 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 326297009120 active site 326297009121 catalytic tetrad [active] 326297009122 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 326297009123 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 326297009124 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 326297009125 catalytic residue [active] 326297009126 Fe-S metabolism associated domain; Region: SufE; cl00951 326297009127 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 326297009128 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 326297009129 active site 326297009130 CAAX protease self-immunity; Region: Abi; pfam02517 326297009131 Domain of unknown function (DUF368); Region: DUF368; pfam04018 326297009132 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 326297009133 CoenzymeA binding site [chemical binding]; other site 326297009134 subunit interaction site [polypeptide binding]; other site 326297009135 PHB binding site; other site 326297009136 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 326297009137 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 326297009138 RNA binding surface [nucleotide binding]; other site 326297009139 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 326297009140 active site 326297009141 uracil binding [chemical binding]; other site 326297009142 Predicted transcriptional regulator [Transcription]; Region: COG2345 326297009143 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 326297009144 putative Zn2+ binding site [ion binding]; other site 326297009145 putative DNA binding site [nucleotide binding]; other site 326297009146 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 326297009147 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 326297009148 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 326297009149 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 326297009150 active site 326297009151 metal binding site [ion binding]; metal-binding site 326297009152 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 326297009153 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 326297009154 active site 326297009155 metal binding site [ion binding]; metal-binding site 326297009156 Domain of unknown function (DUF1971); Region: DUF1971; pfam09313 326297009157 putative acetyltransferase YhhY; Provisional; Region: PRK10140 326297009158 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 326297009159 Coenzyme A binding pocket [chemical binding]; other site 326297009160 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 326297009161 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 326297009162 tetramer interface [polypeptide binding]; other site 326297009163 TPP-binding site [chemical binding]; other site 326297009164 heterodimer interface [polypeptide binding]; other site 326297009165 phosphorylation loop region [posttranslational modification] 326297009166 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 326297009167 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 326297009168 alpha subunit interface [polypeptide binding]; other site 326297009169 TPP binding site [chemical binding]; other site 326297009170 heterodimer interface [polypeptide binding]; other site 326297009171 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 326297009172 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 326297009173 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 326297009174 FAD binding site [chemical binding]; other site 326297009175 substrate binding pocket [chemical binding]; other site 326297009176 catalytic base [active] 326297009177 Transcriptional regulator [Transcription]; Region: LysR; COG0583 326297009178 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297009179 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 326297009180 dimerization interface [polypeptide binding]; other site 326297009181 MltA-interacting protein MipA; Region: MipA; cl01504 326297009182 Protein of unknown function (DUF3019); Region: DUF3019; pfam11456 326297009183 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 326297009184 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297009185 active site 326297009186 phosphorylation site [posttranslational modification] 326297009187 intermolecular recognition site; other site 326297009188 dimerization interface [polypeptide binding]; other site 326297009189 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 326297009190 DNA binding site [nucleotide binding] 326297009191 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 326297009192 HAMP domain; Region: HAMP; pfam00672 326297009193 dimerization interface [polypeptide binding]; other site 326297009194 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 326297009195 dimer interface [polypeptide binding]; other site 326297009196 phosphorylation site [posttranslational modification] 326297009197 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 326297009198 ATP binding site [chemical binding]; other site 326297009199 Mg2+ binding site [ion binding]; other site 326297009200 G-X-G motif; other site 326297009201 Predicted Fe-S protein [General function prediction only]; Region: COG3313 326297009202 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 326297009203 Ycf46; Provisional; Region: ycf46; CHL00195 326297009204 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 326297009205 Walker A motif; other site 326297009206 ATP binding site [chemical binding]; other site 326297009207 Walker B motif; other site 326297009208 arginine finger; other site 326297009209 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 326297009210 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 326297009211 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 326297009212 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 326297009213 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 326297009214 ATP-grasp domain; Region: ATP-grasp; pfam02222 326297009215 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 326297009216 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 326297009217 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 326297009218 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 326297009219 glycerate dehydrogenase; Provisional; Region: PRK06487 326297009220 putative ligand binding site [chemical binding]; other site 326297009221 putative NAD binding site [chemical binding]; other site 326297009222 catalytic site [active] 326297009223 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 326297009224 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 326297009225 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 326297009226 putative metal binding site [ion binding]; other site 326297009227 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 326297009228 HSP70 interaction site [polypeptide binding]; other site 326297009229 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 326297009230 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 326297009231 Substrate binding site; other site 326297009232 metal-binding site 326297009233 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 326297009234 Phosphotransferase enzyme family; Region: APH; pfam01636 326297009235 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 326297009236 OstA-like protein; Region: OstA; cl00844 326297009237 Organic solvent tolerance protein; Region: OstA_C; pfam04453 326297009238 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 326297009239 SurA N-terminal domain; Region: SurA_N; pfam09312 326297009240 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 326297009241 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 326297009242 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 326297009243 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 326297009244 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 326297009245 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 326297009246 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 326297009247 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 326297009248 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 326297009249 active site 326297009250 metal binding site [ion binding]; metal-binding site 326297009251 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 326297009252 dimerization interface [polypeptide binding]; other site 326297009253 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 326297009254 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 326297009255 dimer interface [polypeptide binding]; other site 326297009256 putative CheW interface [polypeptide binding]; other site 326297009257 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 326297009258 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 326297009259 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 326297009260 NADP+ binding site [chemical binding]; other site 326297009261 folate binding site [chemical binding]; other site 326297009262 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 326297009263 Uncharacterized conserved protein [Function unknown]; Region: COG2966 326297009264 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 326297009265 GTPase CgtA; Reviewed; Region: obgE; PRK12298 326297009266 GTP1/OBG; Region: GTP1_OBG; pfam01018 326297009267 Obg GTPase; Region: Obg; cd01898 326297009268 G1 box; other site 326297009269 GTP/Mg2+ binding site [chemical binding]; other site 326297009270 Switch I region; other site 326297009271 G2 box; other site 326297009272 G3 box; other site 326297009273 Switch II region; other site 326297009274 G4 box; other site 326297009275 G5 box; other site 326297009276 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 326297009277 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 326297009278 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 326297009279 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 326297009280 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 326297009281 substrate binding pocket [chemical binding]; other site 326297009282 chain length determination region; other site 326297009283 substrate-Mg2+ binding site; other site 326297009284 catalytic residues [active] 326297009285 aspartate-rich region 1; other site 326297009286 active site lid residues [active] 326297009287 aspartate-rich region 2; other site 326297009288 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 326297009289 ligand binding site [chemical binding]; other site 326297009290 active site 326297009291 UGI interface [polypeptide binding]; other site 326297009292 catalytic site [active] 326297009293 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 326297009294 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 326297009295 PAS domain S-box; Region: sensory_box; TIGR00229 326297009296 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 326297009297 putative active site [active] 326297009298 heme pocket [chemical binding]; other site 326297009299 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 326297009300 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 326297009301 Walker A motif; other site 326297009302 ATP binding site [chemical binding]; other site 326297009303 Walker B motif; other site 326297009304 arginine finger; other site 326297009305 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 326297009306 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 326297009307 4Fe-4S binding domain; Region: Fer4_5; pfam12801 326297009308 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 326297009309 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 326297009310 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 326297009311 DsbD alpha interface [polypeptide binding]; other site 326297009312 catalytic residues [active] 326297009313 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 326297009314 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 326297009315 Active Sites [active] 326297009316 sulfite reductase subunit beta; Provisional; Region: PRK13504 326297009317 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 326297009318 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 326297009319 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 326297009320 Flavodoxin; Region: Flavodoxin_1; pfam00258 326297009321 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 326297009322 FAD binding pocket [chemical binding]; other site 326297009323 FAD binding motif [chemical binding]; other site 326297009324 catalytic residues [active] 326297009325 NAD binding pocket [chemical binding]; other site 326297009326 phosphate binding motif [ion binding]; other site 326297009327 beta-alpha-beta structure motif; other site 326297009328 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 326297009329 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 326297009330 ligand binding site [chemical binding]; other site 326297009331 homodimer interface [polypeptide binding]; other site 326297009332 NAD(P) binding site [chemical binding]; other site 326297009333 trimer interface B [polypeptide binding]; other site 326297009334 trimer interface A [polypeptide binding]; other site 326297009335 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 326297009336 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 326297009337 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 326297009338 Short C-terminal domain; Region: SHOCT; pfam09851 326297009339 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 326297009340 Major Facilitator Superfamily; Region: MFS_1; pfam07690 326297009341 putative substrate translocation pore; other site 326297009342 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 326297009343 SpoOM protein; Region: Spo0M; pfam07070 326297009344 Transcriptional regulator [Transcription]; Region: LysR; COG0583 326297009345 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297009346 LysR substrate binding domain; Region: LysR_substrate; pfam03466 326297009347 dimerization interface [polypeptide binding]; other site 326297009348 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 326297009349 Major Facilitator Superfamily; Region: MFS_1; pfam07690 326297009350 putative substrate translocation pore; other site 326297009351 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 326297009352 Ligand Binding Site [chemical binding]; other site 326297009353 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 326297009354 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 326297009355 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 326297009356 NAD(P) binding site [chemical binding]; other site 326297009357 catalytic residues [active] 326297009358 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 326297009359 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 326297009360 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 326297009361 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 326297009362 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 326297009363 Curli assembly protein CsgE; Region: CsgE; pfam10627 326297009364 HAMP domain; Region: HAMP; pfam00672 326297009365 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 326297009366 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 326297009367 ATP binding site [chemical binding]; other site 326297009368 Mg2+ binding site [ion binding]; other site 326297009369 G-X-G motif; other site 326297009370 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 326297009371 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297009372 active site 326297009373 phosphorylation site [posttranslational modification] 326297009374 intermolecular recognition site; other site 326297009375 dimerization interface [polypeptide binding]; other site 326297009376 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 326297009377 Walker A motif; other site 326297009378 ATP binding site [chemical binding]; other site 326297009379 Walker B motif; other site 326297009380 arginine finger; other site 326297009381 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 326297009382 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 326297009383 FtsX-like permease family; Region: FtsX; pfam02687 326297009384 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 326297009385 FtsX-like permease family; Region: FtsX; pfam02687 326297009386 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 326297009387 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 326297009388 Walker A/P-loop; other site 326297009389 ATP binding site [chemical binding]; other site 326297009390 Q-loop/lid; other site 326297009391 ABC transporter signature motif; other site 326297009392 Walker B; other site 326297009393 D-loop; other site 326297009394 H-loop/switch region; other site 326297009395 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 326297009396 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 326297009397 HlyD family secretion protein; Region: HlyD_3; pfam13437 326297009398 MAPEG family; Region: MAPEG; cl09190 326297009399 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 326297009400 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 326297009401 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 326297009402 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 326297009403 cobalamin binding residues [chemical binding]; other site 326297009404 putative BtuC binding residues; other site 326297009405 dimer interface [polypeptide binding]; other site 326297009406 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 326297009407 active site 326297009408 substrate binding pocket [chemical binding]; other site 326297009409 dimer interface [polypeptide binding]; other site 326297009410 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 326297009411 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 326297009412 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297009413 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297009414 metal binding site [ion binding]; metal-binding site 326297009415 active site 326297009416 I-site; other site 326297009417 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 326297009418 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. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 326297009419 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 326297009420 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 326297009421 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 326297009422 N-terminal plug; other site 326297009423 ligand-binding site [chemical binding]; other site 326297009424 HEAT repeats; Region: HEAT_2; pfam13646 326297009425 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 326297009426 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 326297009427 dimer interface [polypeptide binding]; other site 326297009428 putative anticodon binding site; other site 326297009429 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 326297009430 motif 1; other site 326297009431 active site 326297009432 motif 2; other site 326297009433 motif 3; other site 326297009434 peptide chain release factor 2; Validated; Region: prfB; PRK00578 326297009435 This domain is found in peptide chain release factors; Region: PCRF; smart00937 326297009436 RF-1 domain; Region: RF-1; pfam00472 326297009437 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 326297009438 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 326297009439 Ion channel; Region: Ion_trans_2; pfam07885 326297009440 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 326297009441 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 326297009442 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 326297009443 dimerization interface [polypeptide binding]; other site 326297009444 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 326297009445 dimer interface [polypeptide binding]; other site 326297009446 putative CheW interface [polypeptide binding]; other site 326297009447 Flavodoxin domain; Region: Flavodoxin_5; cl17428 326297009448 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 326297009449 Major Facilitator Superfamily; Region: MFS_1; pfam07690 326297009450 putative substrate translocation pore; other site 326297009451 TIGR03899 family protein; Region: TIGR03899 326297009452 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 326297009453 aspartate racemase; Region: asp_race; TIGR00035 326297009454 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 326297009455 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297009456 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297009457 metal binding site [ion binding]; metal-binding site 326297009458 active site 326297009459 I-site; other site 326297009460 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...; Region: APSK; cd02027 326297009461 ligand-binding site [chemical binding]; other site 326297009462 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 326297009463 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 326297009464 TrkA-C domain; Region: TrkA_C; pfam02080 326297009465 TrkA-C domain; Region: TrkA_C; pfam02080 326297009466 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 326297009467 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 326297009468 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 326297009469 CysD dimerization site [polypeptide binding]; other site 326297009470 G1 box; other site 326297009471 putative GEF interaction site [polypeptide binding]; other site 326297009472 GTP/Mg2+ binding site [chemical binding]; other site 326297009473 Switch I region; other site 326297009474 G2 box; other site 326297009475 G3 box; other site 326297009476 Switch II region; other site 326297009477 G4 box; other site 326297009478 G5 box; other site 326297009479 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 326297009480 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 326297009481 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 326297009482 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 326297009483 Active Sites [active] 326297009484 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 326297009485 active site 326297009486 SAM binding site [chemical binding]; other site 326297009487 homodimer interface [polypeptide binding]; other site 326297009488 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 326297009489 dimerization interface [polypeptide binding]; other site 326297009490 substrate binding site [chemical binding]; other site 326297009491 active site 326297009492 calcium binding site [ion binding]; other site 326297009493 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 326297009494 Active site serine [active] 326297009495 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 326297009496 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 326297009497 N-terminal plug; other site 326297009498 ligand-binding site [chemical binding]; other site 326297009499 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 326297009500 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 326297009501 acyl-activating enzyme (AAE) consensus motif; other site 326297009502 putative AMP binding site [chemical binding]; other site 326297009503 putative active site [active] 326297009504 putative CoA binding site [chemical binding]; other site 326297009505 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 326297009506 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 326297009507 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 326297009508 Transcriptional regulator [Transcription]; Region: LysR; COG0583 326297009509 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297009510 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 326297009511 dimerization interface [polypeptide binding]; other site 326297009512 Transcriptional regulator [Transcription]; Region: LysR; COG0583 326297009513 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297009514 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 326297009515 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 326297009516 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 326297009517 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 326297009518 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 326297009519 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 326297009520 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 326297009521 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 326297009522 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 326297009523 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 326297009524 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 326297009525 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 326297009526 Walker A/P-loop; other site 326297009527 ATP binding site [chemical binding]; other site 326297009528 Q-loop/lid; other site 326297009529 ABC transporter signature motif; other site 326297009530 Walker B; other site 326297009531 D-loop; other site 326297009532 H-loop/switch region; other site 326297009533 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cl16915 326297009534 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 326297009535 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 326297009536 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; pfam09904 326297009537 Bacterial PH domain; Region: DUF304; pfam03703 326297009538 Predicted membrane protein [Function unknown]; Region: COG3428 326297009539 Bacterial PH domain; Region: DUF304; pfam03703 326297009540 Bacterial PH domain; Region: DUF304; pfam03703 326297009541 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 326297009542 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 326297009543 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 326297009544 substrate binding pocket [chemical binding]; other site 326297009545 membrane-bound complex binding site; other site 326297009546 hinge residues; other site 326297009547 EamA-like transporter family; Region: EamA; pfam00892 326297009548 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 326297009549 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 326297009550 Zn binding site [ion binding]; other site 326297009551 Glycerophosphodiester phosphodiesterase domain similar to Escherichia coli periplasmic phosphodiesterase (GlpQ) include uncharacterized proteins; Region: GDPD_EcGlpQ_like_1; cd08560 326297009552 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 326297009553 putative active site [active] 326297009554 catalytic site [active] 326297009555 putative metal binding site [ion binding]; other site 326297009556 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 326297009557 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 326297009558 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 326297009559 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 326297009560 Major Facilitator Superfamily; Region: MFS_1; pfam07690 326297009561 putative substrate translocation pore; other site 326297009562 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 326297009563 Beta-lactamase; Region: Beta-lactamase; pfam00144 326297009564 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 326297009565 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 326297009566 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 326297009567 active site 326297009568 PhoD-like phosphatase; Region: PhoD; pfam09423 326297009569 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 326297009570 putative active site [active] 326297009571 putative metal binding site [ion binding]; other site 326297009572 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 326297009573 FOG: CBS domain [General function prediction only]; Region: COG0517 326297009574 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 326297009575 LrgB-like family; Region: LrgB; cl00596 326297009576 LrgA family; Region: LrgA; cl00608 326297009577 Transcriptional regulator [Transcription]; Region: LysR; COG0583 326297009578 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297009579 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 326297009580 putative dimerization interface [polypeptide binding]; other site 326297009581 RES domain; Region: RES; smart00953 326297009582 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 326297009583 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 326297009584 FMN binding site [chemical binding]; other site 326297009585 dimer interface [polypeptide binding]; other site 326297009586 DNA-J related protein; Region: DNAJ_related; pfam12339 326297009587 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 326297009588 HSP70 interaction site [polypeptide binding]; other site 326297009589 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 326297009590 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 326297009591 catalytic residues [active] 326297009592 hinge region; other site 326297009593 alpha helical domain; other site 326297009594 GlyGly-CTERM domain; Region: GlyGly_CTERM; TIGR03501 326297009595 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 326297009596 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 326297009597 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 326297009598 RNA binding surface [nucleotide binding]; other site 326297009599 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 326297009600 active site 326297009601 Peptidase S46; Region: Peptidase_S46; pfam10459 326297009602 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 326297009603 aromatic amino acid transport protein; Region: araaP; TIGR00837 326297009604 yybP-ykoY element as predicted by Rfam (RF00080), score 64.72 326297009605 Predicted membrane protein [Function unknown]; Region: COG2119 326297009606 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 326297009607 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 326297009608 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 326297009609 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 326297009610 tetramer interface [polypeptide binding]; other site 326297009611 heme binding pocket [chemical binding]; other site 326297009612 NADPH binding site [chemical binding]; other site 326297009613 Transposase IS200 like; Region: Y1_Tnp; pfam01797 326297009614 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 326297009615 CoenzymeA binding site [chemical binding]; other site 326297009616 subunit interaction site [polypeptide binding]; other site 326297009617 PHB binding site; other site 326297009618 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 326297009619 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 326297009620 generic binding surface II; other site 326297009621 generic binding surface I; other site 326297009622 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 326297009623 putative catalytic site [active] 326297009624 putative metal binding site [ion binding]; other site 326297009625 putative phosphate binding site [ion binding]; other site 326297009626 Curlin associated repeat; Region: Curlin_rpt; pfam07012 326297009627 Curlin associated repeat; Region: Curlin_rpt; pfam07012 326297009628 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 326297009629 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 326297009630 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 326297009631 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 326297009632 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 326297009633 DNA binding residues [nucleotide binding] 326297009634 dimerization interface [polypeptide binding]; other site 326297009635 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 326297009636 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 326297009637 ligand binding site [chemical binding]; other site 326297009638 NAD binding site [chemical binding]; other site 326297009639 tetramer interface [polypeptide binding]; other site 326297009640 catalytic site [active] 326297009641 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 326297009642 L-serine binding site [chemical binding]; other site 326297009643 ACT domain interface; other site 326297009644 putative global regulator; Reviewed; Region: PRK09559 326297009645 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 326297009646 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 326297009647 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297009648 active site 326297009649 phosphorylation site [posttranslational modification] 326297009650 intermolecular recognition site; other site 326297009651 dimerization interface [polypeptide binding]; other site 326297009652 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 326297009653 Zn2+ binding site [ion binding]; other site 326297009654 Mg2+ binding site [ion binding]; other site 326297009655 Cache domain; Region: Cache_1; pfam02743 326297009656 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 326297009657 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 326297009658 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 326297009659 putative active site [active] 326297009660 heme pocket [chemical binding]; other site 326297009661 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 326297009662 putative active site [active] 326297009663 heme pocket [chemical binding]; other site 326297009664 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 326297009665 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 326297009666 putative active site [active] 326297009667 heme pocket [chemical binding]; other site 326297009668 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 326297009669 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 326297009670 putative active site [active] 326297009671 heme pocket [chemical binding]; other site 326297009672 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 326297009673 dimer interface [polypeptide binding]; other site 326297009674 phosphorylation site [posttranslational modification] 326297009675 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 326297009676 ATP binding site [chemical binding]; other site 326297009677 Mg2+ binding site [ion binding]; other site 326297009678 G-X-G motif; other site 326297009679 Response regulator receiver domain; Region: Response_reg; pfam00072 326297009680 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297009681 active site 326297009682 phosphorylation site [posttranslational modification] 326297009683 intermolecular recognition site; other site 326297009684 dimerization interface [polypeptide binding]; other site 326297009685 Response regulator receiver domain; Region: Response_reg; pfam00072 326297009686 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297009687 active site 326297009688 phosphorylation site [posttranslational modification] 326297009689 intermolecular recognition site; other site 326297009690 dimerization interface [polypeptide binding]; other site 326297009691 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 326297009692 putative binding surface; other site 326297009693 active site 326297009694 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 326297009695 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 326297009696 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 326297009697 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 326297009698 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 326297009699 Walker A/P-loop; other site 326297009700 ATP binding site [chemical binding]; other site 326297009701 Q-loop/lid; other site 326297009702 ABC transporter signature motif; other site 326297009703 Walker B; other site 326297009704 D-loop; other site 326297009705 H-loop/switch region; other site 326297009706 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 326297009707 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 326297009708 OmpA family; Region: OmpA; pfam00691 326297009709 ligand binding site [chemical binding]; other site 326297009710 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 326297009711 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 326297009712 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 326297009713 DNA-binding site [nucleotide binding]; DNA binding site 326297009714 RNA-binding motif; other site 326297009715 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 326297009716 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 326297009717 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 326297009718 putative RNA binding site [nucleotide binding]; other site 326297009719 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 326297009720 S-adenosylmethionine binding site [chemical binding]; other site 326297009721 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 326297009722 putative catalytic site [active] 326297009723 putative metal binding site [ion binding]; other site 326297009724 putative phosphate binding site [ion binding]; other site 326297009725 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 326297009726 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 326297009727 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 326297009728 putative FMN binding site [chemical binding]; other site 326297009729 putative dimer interface [polypeptide binding]; other site 326297009730 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 326297009731 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 326297009732 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297009733 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297009734 metal binding site [ion binding]; metal-binding site 326297009735 active site 326297009736 I-site; other site 326297009737 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 326297009738 Transglycosylase; Region: Transgly; pfam00912 326297009739 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 326297009740 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 326297009741 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 326297009742 ATP binding site [chemical binding]; other site 326297009743 putative Mg++ binding site [ion binding]; other site 326297009744 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 326297009745 nucleotide binding region [chemical binding]; other site 326297009746 ATP-binding site [chemical binding]; other site 326297009747 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 326297009748 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 326297009749 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 326297009750 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297009751 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297009752 metal binding site [ion binding]; metal-binding site 326297009753 active site 326297009754 I-site; other site 326297009755 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 326297009756 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 326297009757 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 326297009758 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 326297009759 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 326297009760 Coenzyme A binding pocket [chemical binding]; other site 326297009761 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 326297009762 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 326297009763 catalytic loop [active] 326297009764 iron binding site [ion binding]; other site 326297009765 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 326297009766 FAD binding pocket [chemical binding]; other site 326297009767 FAD binding motif [chemical binding]; other site 326297009768 phosphate binding motif [ion binding]; other site 326297009769 beta-alpha-beta structure motif; other site 326297009770 NAD binding pocket [chemical binding]; other site 326297009771 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 326297009772 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 326297009773 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 326297009774 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 326297009775 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 326297009776 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 326297009777 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 326297009778 E3 interaction surface; other site 326297009779 lipoyl attachment site [posttranslational modification]; other site 326297009780 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 326297009781 NapD protein; Region: NapD; pfam03927 326297009782 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 326297009783 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 326297009784 [4Fe-4S] binding site [ion binding]; other site 326297009785 molybdopterin cofactor binding site; other site 326297009786 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 326297009787 molybdopterin cofactor binding site; other site 326297009788 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 326297009789 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 326297009790 4Fe-4S binding domain; Region: Fer4_5; pfam12801 326297009791 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 326297009792 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 326297009793 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 326297009794 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297009795 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 326297009796 putative dimerization interface [polypeptide binding]; other site 326297009797 Lysine efflux permease [General function prediction only]; Region: COG1279 326297009798 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 326297009799 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 326297009800 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297009801 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297009802 metal binding site [ion binding]; metal-binding site 326297009803 active site 326297009804 I-site; other site 326297009805 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 326297009806 murein transglycosylase A; Provisional; Region: mltA; PRK11162 326297009807 MltA specific insert domain; Region: MltA; smart00925 326297009808 3D domain; Region: 3D; pfam06725 326297009809 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 326297009810 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 326297009811 Pirin-related protein [General function prediction only]; Region: COG1741 326297009812 Pirin; Region: Pirin; pfam02678 326297009813 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 326297009814 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 326297009815 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 326297009816 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 326297009817 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 326297009818 ABC transporter; Region: ABC_tran_2; pfam12848 326297009819 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 326297009820 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 326297009821 ABC transporter signature motif; other site 326297009822 Walker B; other site 326297009823 D-loop; other site 326297009824 H-loop/switch region; other site 326297009825 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 326297009826 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 326297009827 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 326297009828 putative hydrolase; Provisional; Region: PRK10985 326297009829 Uncharacterized protein family (UPF0270); Region: UPF0270; pfam06794 326297009830 phosphoribulokinase; Provisional; Region: PRK15453 326297009831 active site 326297009832 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 326297009833 Sel1-like repeats; Region: SEL1; smart00671 326297009834 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 326297009835 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 326297009836 ligand binding site [chemical binding]; other site 326297009837 flexible hinge region; other site 326297009838 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 326297009839 putative switch regulator; other site 326297009840 non-specific DNA interactions [nucleotide binding]; other site 326297009841 DNA binding site [nucleotide binding] 326297009842 sequence specific DNA binding site [nucleotide binding]; other site 326297009843 putative cAMP binding site [chemical binding]; other site 326297009844 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 326297009845 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297009846 active site 326297009847 phosphorylation site [posttranslational modification] 326297009848 intermolecular recognition site; other site 326297009849 dimerization interface [polypeptide binding]; other site 326297009850 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 326297009851 DNA binding site [nucleotide binding] 326297009852 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 326297009853 HAMP domain; Region: HAMP; pfam00672 326297009854 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 326297009855 dimer interface [polypeptide binding]; other site 326297009856 phosphorylation site [posttranslational modification] 326297009857 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 326297009858 ATP binding site [chemical binding]; other site 326297009859 Mg2+ binding site [ion binding]; other site 326297009860 G-X-G motif; other site 326297009861 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 326297009862 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 326297009863 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 326297009864 NAD(P) binding site [chemical binding]; other site 326297009865 catalytic residues [active] 326297009866 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 326297009867 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 326297009868 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 326297009869 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 326297009870 inhibitor-cofactor binding pocket; inhibition site 326297009871 pyridoxal 5'-phosphate binding site [chemical binding]; other site 326297009872 catalytic residue [active] 326297009873 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 326297009874 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 326297009875 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 326297009876 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 326297009877 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 326297009878 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 326297009879 glutamine binding [chemical binding]; other site 326297009880 catalytic triad [active] 326297009881 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297009882 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297009883 metal binding site [ion binding]; metal-binding site 326297009884 active site 326297009885 I-site; other site 326297009886 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 326297009887 stringent starvation protein A; Provisional; Region: sspA; PRK09481 326297009888 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 326297009889 C-terminal domain interface [polypeptide binding]; other site 326297009890 putative GSH binding site (G-site) [chemical binding]; other site 326297009891 dimer interface [polypeptide binding]; other site 326297009892 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 326297009893 dimer interface [polypeptide binding]; other site 326297009894 N-terminal domain interface [polypeptide binding]; other site 326297009895 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 326297009896 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 326297009897 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 326297009898 Qi binding site; other site 326297009899 intrachain domain interface; other site 326297009900 interchain domain interface [polypeptide binding]; other site 326297009901 heme bH binding site [chemical binding]; other site 326297009902 heme bL binding site [chemical binding]; other site 326297009903 Qo binding site; other site 326297009904 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 326297009905 interchain domain interface [polypeptide binding]; other site 326297009906 intrachain domain interface; other site 326297009907 Qi binding site; other site 326297009908 Qo binding site; other site 326297009909 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 326297009910 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 326297009911 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 326297009912 [2Fe-2S] cluster binding site [ion binding]; other site 326297009913 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 326297009914 FtsH protease regulator HflC; Provisional; Region: PRK11029 326297009915 FtsH protease regulator HflK; Provisional; Region: PRK10930 326297009916 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 326297009917 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 326297009918 GTPase HflX; Provisional; Region: PRK11058 326297009919 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 326297009920 HflX GTPase family; Region: HflX; cd01878 326297009921 G1 box; other site 326297009922 GTP/Mg2+ binding site [chemical binding]; other site 326297009923 Switch I region; other site 326297009924 G2 box; other site 326297009925 G3 box; other site 326297009926 Switch II region; other site 326297009927 G4 box; other site 326297009928 G5 box; other site 326297009929 bacterial Hfq-like; Region: Hfq; cd01716 326297009930 hexamer interface [polypeptide binding]; other site 326297009931 Sm1 motif; other site 326297009932 RNA binding site [nucleotide binding]; other site 326297009933 Sm2 motif; other site 326297009934 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 326297009935 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 326297009936 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 326297009937 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 326297009938 ATP binding site [chemical binding]; other site 326297009939 Mg2+ binding site [ion binding]; other site 326297009940 G-X-G motif; other site 326297009941 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 326297009942 ATP binding site [chemical binding]; other site 326297009943 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 326297009944 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 326297009945 AMIN domain; Region: AMIN; pfam11741 326297009946 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 326297009947 active site 326297009948 metal binding site [ion binding]; metal-binding site 326297009949 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 326297009950 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 326297009951 putative carbohydrate kinase; Provisional; Region: PRK10565 326297009952 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 326297009953 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 326297009954 putative substrate binding site [chemical binding]; other site 326297009955 putative ATP binding site [chemical binding]; other site 326297009956 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 326297009957 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 326297009958 catalytic site [active] 326297009959 putative active site [active] 326297009960 putative substrate binding site [chemical binding]; other site 326297009961 dimer interface [polypeptide binding]; other site 326297009962 GTPase RsgA; Reviewed; Region: PRK12288 326297009963 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 326297009964 RNA binding site [nucleotide binding]; other site 326297009965 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 326297009966 GTPase/Zn-binding domain interface [polypeptide binding]; other site 326297009967 GTP/Mg2+ binding site [chemical binding]; other site 326297009968 G4 box; other site 326297009969 G5 box; other site 326297009970 G1 box; other site 326297009971 Switch I region; other site 326297009972 G2 box; other site 326297009973 G3 box; other site 326297009974 Switch II region; other site 326297009975 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 326297009976 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 326297009977 EamA-like transporter family; Region: EamA; pfam00892 326297009978 EamA-like transporter family; Region: EamA; pfam00892 326297009979 Mechanosensitive ion channel porin domain; Region: MscS_porin; pfam12795 326297009980 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 326297009981 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 326297009982 Mechanosensitive ion channel; Region: MS_channel; pfam00924 326297009983 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 326297009984 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 326297009985 active site 326297009986 catalytic site [active] 326297009987 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 326297009988 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 326297009989 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 326297009990 NAD binding site [chemical binding]; other site 326297009991 ligand binding site [chemical binding]; other site 326297009992 catalytic site [active] 326297009993 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 326297009994 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 326297009995 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 326297009996 CAP-like domain; other site 326297009997 active site 326297009998 primary dimer interface [polypeptide binding]; other site 326297009999 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 326297010000 SdiA-regulated; Region: SdiA-regulated; cd09971 326297010001 putative active site [active] 326297010002 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 326297010003 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 326297010004 ATP binding site [chemical binding]; other site 326297010005 Mg2+ binding site [ion binding]; other site 326297010006 G-X-G motif; other site 326297010007 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 326297010008 anchoring element; other site 326297010009 dimer interface [polypeptide binding]; other site 326297010010 ATP binding site [chemical binding]; other site 326297010011 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 326297010012 active site 326297010013 metal binding site [ion binding]; metal-binding site 326297010014 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 326297010015 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 326297010016 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 326297010017 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 326297010018 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 326297010019 active site 326297010020 metal binding site [ion binding]; metal-binding site 326297010021 hexamer interface [polypeptide binding]; other site 326297010022 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 326297010023 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 326297010024 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 326297010025 dimer interface [polypeptide binding]; other site 326297010026 ADP-ribose binding site [chemical binding]; other site 326297010027 active site 326297010028 nudix motif; other site 326297010029 metal binding site [ion binding]; metal-binding site 326297010030 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 326297010031 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 326297010032 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 326297010033 Protein of unknown function (DUF461); Region: DUF461; pfam04314 326297010034 enoyl-CoA hydratase; Provisional; Region: PRK06688 326297010035 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 326297010036 substrate binding site [chemical binding]; other site 326297010037 oxyanion hole (OAH) forming residues; other site 326297010038 trimer interface [polypeptide binding]; other site 326297010039 PspC domain; Region: PspC; pfam04024 326297010040 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 326297010041 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 326297010042 FMN binding site [chemical binding]; other site 326297010043 active site 326297010044 catalytic residues [active] 326297010045 substrate binding site [chemical binding]; other site 326297010046 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 326297010047 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 326297010048 alanine racemase; Reviewed; Region: alr; PRK00053 326297010049 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 326297010050 active site 326297010051 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 326297010052 substrate binding site [chemical binding]; other site 326297010053 catalytic residues [active] 326297010054 dimer interface [polypeptide binding]; other site 326297010055 replicative DNA helicase; Provisional; Region: PRK08006 326297010056 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 326297010057 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 326297010058 Walker A motif; other site 326297010059 ATP binding site [chemical binding]; other site 326297010060 Walker B motif; other site 326297010061 DNA binding loops [nucleotide binding] 326297010062 Peptidase S46; Region: Peptidase_S46; pfam10459 326297010063 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 326297010064 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 326297010065 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 326297010066 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 326297010067 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 326297010068 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 326297010069 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 326297010070 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 326297010071 primosomal replication protein N; Provisional; Region: PRK02801 326297010072 generic binding surface I; other site 326297010073 generic binding surface II; other site 326297010074 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 326297010075 Protein of unknown function, DUF481; Region: DUF481; pfam04338 326297010076 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 326297010077 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 326297010078 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 326297010079 exoribonuclease R; Provisional; Region: PRK11642 326297010080 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 326297010081 RNB domain; Region: RNB; pfam00773 326297010082 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 326297010083 RNA binding site [nucleotide binding]; other site 326297010084 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 326297010085 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 326297010086 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 326297010087 GDP-binding site [chemical binding]; other site 326297010088 ACT binding site; other site 326297010089 IMP binding site; other site 326297010090 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 326297010091 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 326297010092 23S rRNA interface [nucleotide binding]; other site 326297010093 L3 interface [polypeptide binding]; other site 326297010094 Predicted ATPase [General function prediction only]; Region: COG1485 326297010095 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 326297010096 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 326297010097 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 326297010098 protein binding site [polypeptide binding]; other site 326297010099 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 326297010100 protein binding site [polypeptide binding]; other site 326297010101 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 326297010102 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 326297010103 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 326297010104 protein binding site [polypeptide binding]; other site 326297010105 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 326297010106 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 326297010107 hinge; other site 326297010108 active site 326297010109 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 326297010110 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 326297010111 anti sigma factor interaction site; other site 326297010112 regulatory phosphorylation site [posttranslational modification]; other site 326297010113 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 326297010114 mce related protein; Region: MCE; pfam02470 326297010115 conserved hypothetical integral membrane protein; Region: TIGR00056 326297010116 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 326297010117 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 326297010118 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 326297010119 Walker A/P-loop; other site 326297010120 ATP binding site [chemical binding]; other site 326297010121 Q-loop/lid; other site 326297010122 ABC transporter signature motif; other site 326297010123 Walker B; other site 326297010124 D-loop; other site 326297010125 H-loop/switch region; other site 326297010126 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 326297010127 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 326297010128 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 326297010129 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 326297010130 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 326297010131 putative active site [active] 326297010132 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 326297010133 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 326297010134 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 326297010135 active site 326297010136 motif I; other site 326297010137 motif II; other site 326297010138 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 326297010139 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 326297010140 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 326297010141 OstA-like protein; Region: OstA; pfam03968 326297010142 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 326297010143 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 326297010144 Walker A/P-loop; other site 326297010145 ATP binding site [chemical binding]; other site 326297010146 Q-loop/lid; other site 326297010147 ABC transporter signature motif; other site 326297010148 Walker B; other site 326297010149 D-loop; other site 326297010150 H-loop/switch region; other site 326297010151 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 326297010152 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 326297010153 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 326297010154 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 326297010155 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 326297010156 30S subunit binding site; other site 326297010157 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 326297010158 active site 326297010159 phosphorylation site [posttranslational modification] 326297010160 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 326297010161 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 326297010162 dimerization domain swap beta strand [polypeptide binding]; other site 326297010163 regulatory protein interface [polypeptide binding]; other site 326297010164 active site 326297010165 regulatory phosphorylation site [posttranslational modification]; other site 326297010166 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 326297010167 MgtE intracellular N domain; Region: MgtE_N; smart00924 326297010168 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 326297010169 Divalent cation transporter; Region: MgtE; cl00786 326297010170 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 326297010171 molybdate ABC transporter periplasmic molybdate-binding protein; Provisional; Region: PRK03537 326297010172 putative outer membrane lipoprotein; Provisional; Region: PRK10510 326297010173 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 326297010174 ligand binding site [chemical binding]; other site 326297010175 Transposase; Region: HTH_Tnp_1; cl17663 326297010176 GAF domain; Region: GAF; pfam01590 326297010177 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297010178 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297010179 metal binding site [ion binding]; metal-binding site 326297010180 active site 326297010181 I-site; other site 326297010182 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 326297010183 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 326297010184 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 326297010185 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 326297010186 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 326297010187 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 326297010188 DNA-binding site [nucleotide binding]; DNA binding site 326297010189 RNA-binding motif; other site 326297010190 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 326297010191 Protein of unknown function (DUF3624); Region: DUF3624; pfam12292 326297010192 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 326297010193 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 326297010194 putative GSH binding site (G-site) [chemical binding]; other site 326297010195 active site cysteine [active] 326297010196 putative C-terminal domain interface [polypeptide binding]; other site 326297010197 putative dimer interface [polypeptide binding]; other site 326297010198 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 326297010199 putative N-terminal domain interface [polypeptide binding]; other site 326297010200 putative dimer interface [polypeptide binding]; other site 326297010201 putative substrate binding pocket (H-site) [chemical binding]; other site 326297010202 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 326297010203 catalytic core [active] 326297010204 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 326297010205 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 326297010206 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 326297010207 metal ion-dependent adhesion site (MIDAS); other site 326297010208 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 326297010209 non-specific DNA binding site [nucleotide binding]; other site 326297010210 salt bridge; other site 326297010211 sequence-specific DNA binding site [nucleotide binding]; other site 326297010212 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 326297010213 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 326297010214 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 326297010215 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 326297010216 PAS domain S-box; Region: sensory_box; TIGR00229 326297010217 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 326297010218 putative active site [active] 326297010219 heme pocket [chemical binding]; other site 326297010220 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 326297010221 PAS fold; Region: PAS_3; pfam08447 326297010222 putative active site [active] 326297010223 heme pocket [chemical binding]; other site 326297010224 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 326297010225 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 326297010226 dimer interface [polypeptide binding]; other site 326297010227 phosphorylation site [posttranslational modification] 326297010228 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 326297010229 ATP binding site [chemical binding]; other site 326297010230 Mg2+ binding site [ion binding]; other site 326297010231 G-X-G motif; other site 326297010232 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 326297010233 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297010234 active site 326297010235 phosphorylation site [posttranslational modification] 326297010236 intermolecular recognition site; other site 326297010237 dimerization interface [polypeptide binding]; other site 326297010238 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 326297010239 putative binding surface; other site 326297010240 active site 326297010241 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 326297010242 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297010243 active site 326297010244 phosphorylation site [posttranslational modification] 326297010245 intermolecular recognition site; other site 326297010246 dimerization interface [polypeptide binding]; other site 326297010247 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 326297010248 Zn2+ binding site [ion binding]; other site 326297010249 Mg2+ binding site [ion binding]; other site 326297010250 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 326297010251 Major Facilitator Superfamily; Region: MFS_1; pfam07690 326297010252 putative substrate translocation pore; other site 326297010253 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 326297010254 Cna protein B-type domain; Region: Cna_B; pfam05738 326297010255 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297010256 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297010257 metal binding site [ion binding]; metal-binding site 326297010258 active site 326297010259 I-site; other site 326297010260 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 326297010261 Protein of unknown function (DUF3034); Region: DUF3034; pfam11231 326297010262 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 326297010263 apolar tunnel; other site 326297010264 heme binding site [chemical binding]; other site 326297010265 dimerization interface [polypeptide binding]; other site 326297010266 Uncharacterized conserved protein [Function unknown]; Region: COG1432 326297010267 LabA_like proteins; Region: LabA; cd10911 326297010268 putative metal binding site [ion binding]; other site 326297010269 Tim44-like domain; Region: Tim44; pfam04280 326297010270 Domain of unknown function (DUF4325); Region: DUF4325; pfam14213 326297010271 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 326297010272 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 326297010273 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 326297010274 ring oligomerisation interface [polypeptide binding]; other site 326297010275 ATP/Mg binding site [chemical binding]; other site 326297010276 stacking interactions; other site 326297010277 hinge regions; other site 326297010278 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 326297010279 oligomerisation interface [polypeptide binding]; other site 326297010280 mobile loop; other site 326297010281 roof hairpin; other site 326297010282 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 326297010283 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 326297010284 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 326297010285 active site 326297010286 Cache domain; Region: Cache_1; pfam02743 326297010287 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 326297010288 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 326297010289 putative active site [active] 326297010290 heme pocket [chemical binding]; other site 326297010291 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 326297010292 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 326297010293 putative active site [active] 326297010294 heme pocket [chemical binding]; other site 326297010295 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 326297010296 dimer interface [polypeptide binding]; other site 326297010297 phosphorylation site [posttranslational modification] 326297010298 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 326297010299 ATP binding site [chemical binding]; other site 326297010300 Mg2+ binding site [ion binding]; other site 326297010301 G-X-G motif; other site 326297010302 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297010303 Response regulator receiver domain; Region: Response_reg; pfam00072 326297010304 active site 326297010305 phosphorylation site [posttranslational modification] 326297010306 intermolecular recognition site; other site 326297010307 dimerization interface [polypeptide binding]; other site 326297010308 Response regulator receiver domain; Region: Response_reg; pfam00072 326297010309 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297010310 active site 326297010311 phosphorylation site [posttranslational modification] 326297010312 intermolecular recognition site; other site 326297010313 dimerization interface [polypeptide binding]; other site 326297010314 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 326297010315 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 326297010316 putative active site [active] 326297010317 PhoH-like protein; Region: PhoH; pfam02562 326297010318 ATP-dependent helicase HepA; Validated; Region: PRK04914 326297010319 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 326297010320 ATP binding site [chemical binding]; other site 326297010321 putative Mg++ binding site [ion binding]; other site 326297010322 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 326297010323 nucleotide binding region [chemical binding]; other site 326297010324 ATP-binding site [chemical binding]; other site 326297010325 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 326297010326 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 326297010327 active site 326297010328 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 326297010329 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 326297010330 enoyl-CoA hydratase; Provisional; Region: PRK07509 326297010331 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 326297010332 substrate binding site [chemical binding]; other site 326297010333 oxyanion hole (OAH) forming residues; other site 326297010334 trimer interface [polypeptide binding]; other site 326297010335 Response regulator receiver domain; Region: Response_reg; pfam00072 326297010336 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297010337 active site 326297010338 phosphorylation site [posttranslational modification] 326297010339 intermolecular recognition site; other site 326297010340 dimerization interface [polypeptide binding]; other site 326297010341 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 326297010342 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 326297010343 PAS domain S-box; Region: sensory_box; TIGR00229 326297010344 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297010345 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297010346 metal binding site [ion binding]; metal-binding site 326297010347 active site 326297010348 I-site; other site 326297010349 RNase E inhibitor protein; Provisional; Region: PRK11191 326297010350 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 326297010351 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 326297010352 putative acyl-acceptor binding pocket; other site 326297010353 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 326297010354 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 326297010355 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 326297010356 putative ligand binding site [chemical binding]; other site 326297010357 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 326297010358 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 326297010359 Mechanosensitive ion channel; Region: MS_channel; pfam00924 326297010360 formate--tetrahydrofolate ligase; Provisional; Region: PRK13506 326297010361 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 326297010362 Potassium binding sites [ion binding]; other site 326297010363 Cesium cation binding sites [ion binding]; other site 326297010364 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 326297010365 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 326297010366 active site 326297010367 catalytic tetrad [active] 326297010368 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 326297010369 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 326297010370 active site 2 [active] 326297010371 active site 1 [active] 326297010372 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 326297010373 S-adenosylmethionine binding site [chemical binding]; other site 326297010374 CheD chemotactic sensory transduction; Region: CheD; cl00810 326297010375 TraB family; Region: TraB; pfam01963 326297010376 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 326297010377 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 326297010378 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297010379 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297010380 metal binding site [ion binding]; metal-binding site 326297010381 active site 326297010382 I-site; other site 326297010383 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 326297010384 Protein of unknown function (DUF4240); Region: DUF4240; pfam14024 326297010385 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 326297010386 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297010387 active site 326297010388 phosphorylation site [posttranslational modification] 326297010389 intermolecular recognition site; other site 326297010390 dimerization interface [polypeptide binding]; other site 326297010391 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297010392 Response regulator receiver domain; Region: Response_reg; pfam00072 326297010393 active site 326297010394 phosphorylation site [posttranslational modification] 326297010395 intermolecular recognition site; other site 326297010396 dimerization interface [polypeptide binding]; other site 326297010397 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 326297010398 IHF dimer interface [polypeptide binding]; other site 326297010399 IHF - DNA interface [nucleotide binding]; other site 326297010400 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 326297010401 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 326297010402 RimK-like ATP-grasp domain; Region: RimK; pfam08443 326297010403 Response regulator receiver domain; Region: Response_reg; pfam00072 326297010404 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297010405 active site 326297010406 phosphorylation site [posttranslational modification] 326297010407 intermolecular recognition site; other site 326297010408 dimerization interface [polypeptide binding]; other site 326297010409 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297010410 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297010411 metal binding site [ion binding]; metal-binding site 326297010412 active site 326297010413 I-site; other site 326297010414 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 326297010415 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 326297010416 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297010417 active site 326297010418 phosphorylation site [posttranslational modification] 326297010419 intermolecular recognition site; other site 326297010420 dimerization interface [polypeptide binding]; other site 326297010421 CHASE domain; Region: CHASE; pfam03924 326297010422 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 326297010423 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 326297010424 putative active site [active] 326297010425 heme pocket [chemical binding]; other site 326297010426 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 326297010427 dimer interface [polypeptide binding]; other site 326297010428 phosphorylation site [posttranslational modification] 326297010429 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 326297010430 ATP binding site [chemical binding]; other site 326297010431 Mg2+ binding site [ion binding]; other site 326297010432 G-X-G motif; other site 326297010433 Domain of unknown function (DUF1704); Region: DUF1704; pfam08014 326297010434 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 326297010435 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 326297010436 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 326297010437 putative hydrophobic ligand binding site [chemical binding]; other site 326297010438 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 326297010439 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 326297010440 FAD binding site [chemical binding]; other site 326297010441 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 326297010442 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 326297010443 putative catalytic residues [active] 326297010444 putative nucleotide binding site [chemical binding]; other site 326297010445 putative aspartate binding site [chemical binding]; other site 326297010446 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 326297010447 O-succinylhomoserine (thiol)-lyase; Region: O_succ_thio_ly; TIGR02080 326297010448 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 326297010449 homodimer interface [polypeptide binding]; other site 326297010450 substrate-cofactor binding pocket; other site 326297010451 pyridoxal 5'-phosphate binding site [chemical binding]; other site 326297010452 catalytic residue [active] 326297010453 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'...; Region: Met_repressor_MetJ; cd00490 326297010454 dimerization interface [polypeptide binding]; other site 326297010455 DNA binding site [nucleotide binding] 326297010456 corepressor binding sites; other site 326297010457 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 326297010458 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 326297010459 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 326297010460 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 326297010461 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 326297010462 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 326297010463 thiosulfate reductase PhsA; Provisional; Region: PRK15488 326297010464 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 326297010465 putative [Fe4-S4] binding site [ion binding]; other site 326297010466 putative molybdopterin cofactor binding site [chemical binding]; other site 326297010467 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 326297010468 putative molybdopterin cofactor binding site; other site 326297010469 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 326297010470 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 326297010471 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 326297010472 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 326297010473 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 326297010474 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 326297010475 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 326297010476 ATP binding site [chemical binding]; other site 326297010477 Mg2+ binding site [ion binding]; other site 326297010478 G-X-G motif; other site 326297010479 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 326297010480 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297010481 active site 326297010482 phosphorylation site [posttranslational modification] 326297010483 intermolecular recognition site; other site 326297010484 dimerization interface [polypeptide binding]; other site 326297010485 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 326297010486 DNA binding residues [nucleotide binding] 326297010487 dimerization interface [polypeptide binding]; other site 326297010488 Cupin domain; Region: Cupin_2; cl17218 326297010489 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 326297010490 dimer interface [polypeptide binding]; other site 326297010491 putative CheW interface [polypeptide binding]; other site 326297010492 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 326297010493 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 326297010494 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297010495 active site 326297010496 phosphorylation site [posttranslational modification] 326297010497 intermolecular recognition site; other site 326297010498 dimerization interface [polypeptide binding]; other site 326297010499 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 326297010500 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 326297010501 ATP binding site [chemical binding]; other site 326297010502 Mg2+ binding site [ion binding]; other site 326297010503 G-X-G motif; other site 326297010504 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 326297010505 Protein export membrane protein; Region: SecD_SecF; cl14618 326297010506 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 326297010507 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 326297010508 HlyD family secretion protein; Region: HlyD_3; pfam13437 326297010509 Protein of unknown function (DUF3012); Region: DUF3012; pfam11216 326297010510 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 326297010511 hypothetical protein; Provisional; Region: PRK09256 326297010512 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 326297010513 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 326297010514 Dehydroquinase class II; Region: DHquinase_II; pfam01220 326297010515 active site 326297010516 trimer interface [polypeptide binding]; other site 326297010517 dimer interface [polypeptide binding]; other site 326297010518 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 326297010519 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 326297010520 carboxyltransferase (CT) interaction site; other site 326297010521 biotinylation site [posttranslational modification]; other site 326297010522 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 326297010523 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 326297010524 ATP-grasp domain; Region: ATP-grasp_4; cl17255 326297010525 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 326297010526 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 326297010527 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; cd01610 326297010528 active site 326297010529 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 326297010530 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 326297010531 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 326297010532 active site 326297010533 metal binding site [ion binding]; metal-binding site 326297010534 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 326297010535 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 326297010536 S-adenosylmethionine binding site [chemical binding]; other site 326297010537 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 326297010538 SCP-2 sterol transfer family; Region: SCP2; pfam02036 326297010539 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 326297010540 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 326297010541 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 326297010542 sec-independent translocase; Provisional; Region: PRK01770 326297010543 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 326297010544 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 326297010545 active site 326297010546 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 326297010547 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 326297010548 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 326297010549 Archaeal/vacuolar-type H+-ATPase subunit H [Energy production and conversion]; Region: NtpF; COG2811 326297010550 Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]; Region: NtpE; COG1390 326297010551 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297010552 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297010553 metal binding site [ion binding]; metal-binding site 326297010554 active site 326297010555 I-site; other site 326297010556 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 326297010557 dimer interface [polypeptide binding]; other site 326297010558 allosteric magnesium binding site [ion binding]; other site 326297010559 active site 326297010560 aspartate-rich active site metal binding site; other site 326297010561 Schiff base residues; other site 326297010562 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 326297010563 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 326297010564 catalytic residues [active] 326297010565 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 326297010566 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 326297010567 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 326297010568 exopolyphosphatase; Region: exo_poly_only; TIGR03706 326297010569 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 326297010570 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 326297010571 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 326297010572 ATP binding site [chemical binding]; other site 326297010573 Mg++ binding site [ion binding]; other site 326297010574 motif III; other site 326297010575 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 326297010576 nucleotide binding region [chemical binding]; other site 326297010577 ATP-binding site [chemical binding]; other site 326297010578 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 326297010579 catalytic residues [active] 326297010580 transcription termination factor Rho; Provisional; Region: rho; PRK09376 326297010581 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 326297010582 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 326297010583 RNA binding site [nucleotide binding]; other site 326297010584 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 326297010585 multimer interface [polypeptide binding]; other site 326297010586 Walker A motif; other site 326297010587 ATP binding site [chemical binding]; other site 326297010588 Walker B motif; other site 326297010589 Transcriptional regulator [Transcription]; Region: LysR; COG0583 326297010590 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297010591 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 326297010592 putative effector binding pocket; other site 326297010593 dimerization interface [polypeptide binding]; other site 326297010594 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 326297010595 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 326297010596 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 326297010597 L-aspartate oxidase; Provisional; Region: PRK06175 326297010598 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 326297010599 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 326297010600 Iron-sulfur protein interface; other site 326297010601 proximal heme binding site [chemical binding]; other site 326297010602 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 326297010603 distal heme binding site [chemical binding]; other site 326297010604 dimer interface [polypeptide binding]; other site 326297010605 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13554 326297010606 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 326297010607 Iron-sulfur protein interface; other site 326297010608 proximal heme binding site [chemical binding]; other site 326297010609 distal heme binding site [chemical binding]; other site 326297010610 dimer interface [polypeptide binding]; other site 326297010611 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 326297010612 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 326297010613 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 326297010614 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 326297010615 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 326297010616 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 326297010617 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 326297010618 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 326297010619 FMN binding site [chemical binding]; other site 326297010620 active site 326297010621 catalytic residues [active] 326297010622 substrate binding site [chemical binding]; other site 326297010623 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 326297010624 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 326297010625 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 326297010626 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 326297010627 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 326297010628 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 326297010629 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 326297010630 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 326297010631 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 326297010632 Hemerythrin-like domain; Region: Hr-like; cd12108 326297010633 Egg lysin (Sperm-lysin); Region: Egg_lysin; pfam01303 326297010634 Protein of unknown function DUF72; Region: DUF72; cl00777 326297010635 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 326297010636 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 326297010637 eyelet of channel; other site 326297010638 trimer interface [polypeptide binding]; other site 326297010639 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 326297010640 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 326297010641 putative substrate translocation pore; other site 326297010642 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 326297010643 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 326297010644 HAMP domain; Region: HAMP; pfam00672 326297010645 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]; Region: COG4192 326297010646 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 326297010647 dimer interface [polypeptide binding]; other site 326297010648 phosphorylation site [posttranslational modification] 326297010649 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 326297010650 ATP binding site [chemical binding]; other site 326297010651 Mg2+ binding site [ion binding]; other site 326297010652 G-X-G motif; other site 326297010653 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 326297010654 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297010655 active site 326297010656 phosphorylation site [posttranslational modification] 326297010657 intermolecular recognition site; other site 326297010658 dimerization interface [polypeptide binding]; other site 326297010659 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; cl17189 326297010660 Walker A motif; other site 326297010661 ATP binding site [chemical binding]; other site 326297010662 Walker B motif; other site 326297010663 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 326297010664 Divergent AAA domain; Region: AAA_4; pfam04326 326297010665 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 326297010666 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 326297010667 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 326297010668 motif II; other site 326297010669 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 326297010670 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 326297010671 active site 326297010672 Int/Topo IB signature motif; other site 326297010673 Protein of unknown function, DUF484; Region: DUF484; cl17449 326297010674 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 326297010675 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 326297010676 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 326297010677 diaminopimelate decarboxylase; Region: lysA; TIGR01048 326297010678 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 326297010679 active site 326297010680 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 326297010681 substrate binding site [chemical binding]; other site 326297010682 catalytic residues [active] 326297010683 dimer interface [polypeptide binding]; other site 326297010684 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...; Region: Frataxin; cd00503 326297010685 putative iron binding site [ion binding]; other site 326297010686 adenylate cyclase; Provisional; Region: cyaA; PRK09450 326297010687 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 326297010688 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 326297010689 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 326297010690 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 326297010691 domain interfaces; other site 326297010692 active site 326297010693 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 326297010694 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 326297010695 active site 326297010696 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 326297010697 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 326297010698 HemY protein N-terminus; Region: HemY_N; pfam07219 326297010699 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 326297010700 TPR motif; other site 326297010701 Calx-beta domain; Region: Calx-beta; cl02522 326297010702 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 326297010703 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 326297010704 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 326297010705 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 326297010706 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 326297010707 Walker A/P-loop; other site 326297010708 ATP binding site [chemical binding]; other site 326297010709 Q-loop/lid; other site 326297010710 ABC transporter signature motif; other site 326297010711 Walker B; other site 326297010712 D-loop; other site 326297010713 H-loop/switch region; other site 326297010714 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 326297010715 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 326297010716 HlyD family secretion protein; Region: HlyD_3; pfam13437 326297010717 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 326297010718 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 326297010719 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 326297010720 ligand binding site [chemical binding]; other site 326297010721 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 326297010722 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 326297010723 dimerization interface [polypeptide binding]; other site 326297010724 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297010725 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297010726 metal binding site [ion binding]; metal-binding site 326297010727 active site 326297010728 I-site; other site 326297010729 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 326297010730 GAF domain; Region: GAF_3; pfam13492 326297010731 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 326297010732 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 326297010733 GAF domain; Region: GAF_3; pfam13492 326297010734 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297010735 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297010736 metal binding site [ion binding]; metal-binding site 326297010737 active site 326297010738 I-site; other site 326297010739 EAL domain; Region: EAL; pfam00563 326297010740 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 326297010741 Part of AAA domain; Region: AAA_19; pfam13245 326297010742 Family description; Region: UvrD_C_2; pfam13538 326297010743 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 326297010744 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 326297010745 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 326297010746 HlyD family secretion protein; Region: HlyD_3; pfam13437 326297010747 multidrug efflux protein; Reviewed; Region: PRK09579 326297010748 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 326297010749 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 326297010750 dimer interface [polypeptide binding]; other site 326297010751 active site 326297010752 heme binding site [chemical binding]; other site 326297010753 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 326297010754 Membrane fusogenic activity; Region: BMFP; pfam04380 326297010755 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 326297010756 inner membrane protein; Provisional; Region: PRK11715 326297010757 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; cd01610 326297010758 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 326297010759 active site 326297010760 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 326297010761 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 326297010762 substrate binding pocket [chemical binding]; other site 326297010763 membrane-bound complex binding site; other site 326297010764 hinge residues; other site 326297010765 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 326297010766 homodimer interface [polypeptide binding]; other site 326297010767 pyridoxal 5'-phosphate binding site [chemical binding]; other site 326297010768 catalytic residue [active] 326297010769 threonine dehydratase; Reviewed; Region: PRK09224 326297010770 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 326297010771 tetramer interface [polypeptide binding]; other site 326297010772 pyridoxal 5'-phosphate binding site [chemical binding]; other site 326297010773 catalytic residue [active] 326297010774 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 326297010775 putative Ile/Val binding site [chemical binding]; other site 326297010776 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 326297010777 putative Ile/Val binding site [chemical binding]; other site 326297010778 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 326297010779 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 326297010780 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 326297010781 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 326297010782 PYR/PP interface [polypeptide binding]; other site 326297010783 dimer interface [polypeptide binding]; other site 326297010784 TPP binding site [chemical binding]; other site 326297010785 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 326297010786 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 326297010787 TPP-binding site [chemical binding]; other site 326297010788 dimer interface [polypeptide binding]; other site 326297010789 ketol-acid reductoisomerase; Validated; Region: PRK05225 326297010790 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 326297010791 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 326297010792 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 326297010793 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297010794 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 326297010795 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 326297010796 putative dimerization interface [polypeptide binding]; other site 326297010797 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 326297010798 Domain of unknown function DUF21; Region: DUF21; pfam01595 326297010799 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 326297010800 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; cd02205 326297010801 Transporter associated domain; Region: CorC_HlyC; smart01091 326297010802 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 326297010803 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 326297010804 substrate binding pocket [chemical binding]; other site 326297010805 membrane-bound complex binding site; other site 326297010806 hinge residues; other site 326297010807 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 326297010808 GAF domain; Region: GAF; pfam01590 326297010809 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297010810 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297010811 metal binding site [ion binding]; metal-binding site 326297010812 active site 326297010813 I-site; other site 326297010814 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 326297010815 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 326297010816 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 326297010817 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 326297010818 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 326297010819 Walker A motif; other site 326297010820 ATP binding site [chemical binding]; other site 326297010821 Walker B motif; other site 326297010822 arginine finger; other site 326297010823 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 326297010824 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 326297010825 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 326297010826 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 326297010827 putative acyl-acceptor binding pocket; other site 326297010828 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 326297010829 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 326297010830 putative acyl-acceptor binding pocket; other site 326297010831 Uncharacterized conserved protein [Function unknown]; Region: COG1683 326297010832 Transcriptional regulators [Transcription]; Region: GntR; COG1802 326297010833 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 326297010834 DNA-binding site [nucleotide binding]; DNA binding site 326297010835 FCD domain; Region: FCD; pfam07729 326297010836 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 326297010837 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 326297010838 tetramer interface [polypeptide binding]; other site 326297010839 active site 326297010840 Mg2+/Mn2+ binding site [ion binding]; other site 326297010841 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 326297010842 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 326297010843 dimer interface [polypeptide binding]; other site 326297010844 active site 326297010845 citrylCoA binding site [chemical binding]; other site 326297010846 oxalacetate/citrate binding site [chemical binding]; other site 326297010847 coenzyme A binding site [chemical binding]; other site 326297010848 catalytic triad [active] 326297010849 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 326297010850 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 326297010851 substrate binding site [chemical binding]; other site 326297010852 ligand binding site [chemical binding]; other site 326297010853 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 326297010854 substrate binding site [chemical binding]; other site 326297010855 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 326297010856 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 326297010857 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 326297010858 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 326297010859 PAS domain S-box; Region: sensory_box; TIGR00229 326297010860 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 326297010861 putative active site [active] 326297010862 heme pocket [chemical binding]; other site 326297010863 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 326297010864 PAS domain; Region: PAS_9; pfam13426 326297010865 putative active site [active] 326297010866 heme pocket [chemical binding]; other site 326297010867 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297010868 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297010869 metal binding site [ion binding]; metal-binding site 326297010870 active site 326297010871 I-site; other site 326297010872 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 326297010873 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 326297010874 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 326297010875 homodimer interface [polypeptide binding]; other site 326297010876 substrate-cofactor binding pocket; other site 326297010877 catalytic residue [active] 326297010878 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 326297010879 CoA-transferase family III; Region: CoA_transf_3; pfam02515 326297010880 Predicted membrane protein [Function unknown]; Region: COG3212 326297010881 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 326297010882 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 326297010883 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297010884 active site 326297010885 phosphorylation site [posttranslational modification] 326297010886 intermolecular recognition site; other site 326297010887 dimerization interface [polypeptide binding]; other site 326297010888 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 326297010889 DNA binding site [nucleotide binding] 326297010890 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 326297010891 ATP binding site [chemical binding]; other site 326297010892 Mg2+ binding site [ion binding]; other site 326297010893 G-X-G motif; other site 326297010894 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3972 326297010895 Family description; Region: UvrD_C_2; pfam13538 326297010896 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 326297010897 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 326297010898 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 326297010899 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 326297010900 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 326297010901 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 326297010902 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297010903 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297010904 metal binding site [ion binding]; metal-binding site 326297010905 active site 326297010906 I-site; other site 326297010907 Uncharacterized conserved protein [Function unknown]; Region: COG2968 326297010908 Protein of unknown function (DUF541); Region: SIMPL; cl01077 326297010909 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 326297010910 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 326297010911 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 326297010912 S-adenosylmethionine binding site [chemical binding]; other site 326297010913 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 326297010914 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 326297010915 active site 326297010916 catalytic residues [active] 326297010917 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 326297010918 PA/protease or protease-like domain interface [polypeptide binding]; other site 326297010919 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 326297010920 catalytic residues [active] 326297010921 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 326297010922 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 326297010923 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; pfam07073 326297010924 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 326297010925 homotrimer interaction site [polypeptide binding]; other site 326297010926 putative active site [active] 326297010927 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 326297010928 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 326297010929 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 326297010930 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 326297010931 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 326297010932 catalytic residues [active] 326297010933 hinge region; other site 326297010934 alpha helical domain; other site 326297010935 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 326297010936 serine/threonine protein kinase; Provisional; Region: PRK11768 326297010937 Protein of unknown function (DUF3630); Region: DUF3630; pfam12305 326297010938 Nitrous oxide-stimulated promoter; Region: YgbA_NO; pfam11756 326297010939 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 326297010940 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 326297010941 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 326297010942 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 326297010943 putative amphipathic alpha helix; other site 326297010944 Acyltransferase family; Region: Acyl_transf_3; pfam01757 326297010945 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 326297010946 Uncharacterized conserved protein [Function unknown]; Region: COG3339 326297010947 Protein of unknown function (DUF2618); Region: DUF2618; pfam10940 326297010948 ornithine decarboxylase; Provisional; Region: PRK13578 326297010949 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 326297010950 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 326297010951 homodimer interface [polypeptide binding]; other site 326297010952 pyridoxal 5'-phosphate binding site [chemical binding]; other site 326297010953 catalytic residue [active] 326297010954 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 326297010955 putrescine transporter; Provisional; Region: potE; PRK10655 326297010956 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 326297010957 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 326297010958 eyelet of channel; other site 326297010959 trimer interface [polypeptide binding]; other site 326297010960 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 326297010961 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 326297010962 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 326297010963 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 326297010964 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 326297010965 Coenzyme A binding pocket [chemical binding]; other site 326297010966 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 326297010967 Penicillinase repressor; Region: Pencillinase_R; pfam03965 326297010968 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 326297010969 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 326297010970 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 326297010971 HPP family; Region: HPP; pfam04982 326297010972 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 326297010973 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 326297010974 DNA binding residues [nucleotide binding] 326297010975 putative dimer interface [polypeptide binding]; other site 326297010976 putative metal binding residues [ion binding]; other site 326297010977 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 326297010978 hypothetical protein; Provisional; Region: PRK01254 326297010979 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 326297010980 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 326297010981 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 326297010982 FeS/SAM binding site; other site 326297010983 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 326297010984 MAPEG family; Region: MAPEG; cl09190 326297010985 Uncharacterized conserved protein [Function unknown]; Region: COG2966 326297010986 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 326297010987 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 326297010988 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 326297010989 Predicted methyltransferases [General function prediction only]; Region: COG0313 326297010990 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 326297010991 putative SAM binding site [chemical binding]; other site 326297010992 putative homodimer interface [polypeptide binding]; other site 326297010993 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 326297010994 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 326297010995 putative ligand binding site [chemical binding]; other site 326297010996 hypothetical protein; Reviewed; Region: PRK12497 326297010997 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 326297010998 dimer interface [polypeptide binding]; other site 326297010999 active site 326297011000 BON domain; Region: BON; pfam04972 326297011001 BON domain; Region: BON; pfam04972 326297011002 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 326297011003 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297011004 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 326297011005 dimerization interface [polypeptide binding]; other site 326297011006 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 326297011007 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 326297011008 active site 326297011009 HIGH motif; other site 326297011010 dimer interface [polypeptide binding]; other site 326297011011 KMSKS motif; other site 326297011012 phosphoglycolate phosphatase; Provisional; Region: PRK13222 326297011013 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 326297011014 motif II; other site 326297011015 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 326297011016 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 326297011017 substrate binding site [chemical binding]; other site 326297011018 hexamer interface [polypeptide binding]; other site 326297011019 metal binding site [ion binding]; metal-binding site 326297011020 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 326297011021 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 326297011022 AAA domain; Region: AAA_22; pfam13401 326297011023 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 326297011024 active site 326297011025 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 326297011026 active site 326297011027 dimer interface [polypeptide binding]; other site 326297011028 metal binding site [ion binding]; metal-binding site 326297011029 shikimate kinase; Reviewed; Region: aroK; PRK00131 326297011030 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 326297011031 ADP binding site [chemical binding]; other site 326297011032 magnesium binding site [ion binding]; other site 326297011033 putative shikimate binding site; other site 326297011034 AMIN domain; Region: AMIN; pfam11741 326297011035 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 326297011036 Secretin and TonB N terminus short domain; Region: STN; smart00965 326297011037 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 326297011038 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 326297011039 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 326297011040 Pilus assembly protein, PilP; Region: PilP; pfam04351 326297011041 Pilus assembly protein, PilO; Region: PilO; pfam04350 326297011042 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 326297011043 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 326297011044 Cell division protein FtsA; Region: FtsA; cl17206 326297011045 Competence protein A; Region: Competence_A; pfam11104 326297011046 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 326297011047 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 326297011048 Transglycosylase; Region: Transgly; pfam00912 326297011049 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 326297011050 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 326297011051 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 326297011052 generic binding surface II; other site 326297011053 ssDNA binding site; other site 326297011054 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 326297011055 ATP binding site [chemical binding]; other site 326297011056 putative Mg++ binding site [ion binding]; other site 326297011057 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 326297011058 nucleotide binding region [chemical binding]; other site 326297011059 ATP-binding site [chemical binding]; other site 326297011060 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 326297011061 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 326297011062 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 326297011063 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 326297011064 putative acyl-acceptor binding pocket; other site 326297011065 Phosphopantetheine attachment site; Region: PP-binding; cl09936 326297011066 acyl carrier protein; Provisional; Region: PRK05350 326297011067 Predicted membrane protein [Function unknown]; Region: COG4648 326297011068 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 326297011069 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 326297011070 active site 326297011071 CoA binding site [chemical binding]; other site 326297011072 AMP binding site [chemical binding]; other site 326297011073 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 326297011074 active site 2 [active] 326297011075 active site 1 [active] 326297011076 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 326297011077 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 326297011078 Ligand binding site; other site 326297011079 Putative Catalytic site; other site 326297011080 DXD motif; other site 326297011081 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 326297011082 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 326297011083 putative acyl-acceptor binding pocket; other site 326297011084 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 326297011085 active sites [active] 326297011086 tetramer interface [polypeptide binding]; other site 326297011087 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 326297011088 active site 326297011089 Predicted exporter [General function prediction only]; Region: COG4258 326297011090 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 326297011091 Protein of unknown function (DUF3261); Region: DUF3261; pfam11659 326297011092 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 326297011093 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 326297011094 dimer interface [polypeptide binding]; other site 326297011095 active site 326297011096 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 326297011097 putative active site 1 [active] 326297011098 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 326297011099 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 326297011100 NAD(P) binding site [chemical binding]; other site 326297011101 homotetramer interface [polypeptide binding]; other site 326297011102 homodimer interface [polypeptide binding]; other site 326297011103 active site 326297011104 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 326297011105 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 326297011106 dimer interface [polypeptide binding]; other site 326297011107 active site 326297011108 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 326297011109 Zn2+ binding site [ion binding]; other site 326297011110 Mg2+ binding site [ion binding]; other site 326297011111 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 326297011112 active site residue [active] 326297011113 azoreductase; Reviewed; Region: PRK00170 326297011114 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 326297011115 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 326297011116 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 326297011117 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 326297011118 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 326297011119 putative active site [active] 326297011120 dimerization interface [polypeptide binding]; other site 326297011121 putative tRNAtyr binding site [nucleotide binding]; other site 326297011122 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 326297011123 hypothetical protein; Reviewed; Region: PRK01637 326297011124 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 326297011125 CHASE domain; Region: CHASE; cl01369 326297011126 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297011127 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297011128 metal binding site [ion binding]; metal-binding site 326297011129 active site 326297011130 I-site; other site 326297011131 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 326297011132 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 326297011133 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 326297011134 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 326297011135 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 326297011136 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 326297011137 N-terminal plug; other site 326297011138 ligand-binding site [chemical binding]; other site 326297011139 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 326297011140 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 326297011141 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 326297011142 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase; Region: M28_AAP; cd03879 326297011143 Peptidase family M28; Region: Peptidase_M28; pfam04389 326297011144 active site 326297011145 metal binding site [ion binding]; metal-binding site 326297011146 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 326297011147 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 326297011148 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 326297011149 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 326297011150 G1 box; other site 326297011151 putative GEF interaction site [polypeptide binding]; other site 326297011152 GTP/Mg2+ binding site [chemical binding]; other site 326297011153 Switch I region; other site 326297011154 G2 box; other site 326297011155 G3 box; other site 326297011156 Switch II region; other site 326297011157 G4 box; other site 326297011158 G5 box; other site 326297011159 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 326297011160 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 326297011161 glutamine synthetase; Provisional; Region: glnA; PRK09469 326297011162 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 326297011163 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 326297011164 kynureninase; Region: kynureninase; TIGR01814 326297011165 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 326297011166 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 326297011167 catalytic residue [active] 326297011168 Domain of unknown function (DUF1864); Region: DUF1864; pfam08933 326297011169 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 326297011170 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 326297011171 putative DNA binding site [nucleotide binding]; other site 326297011172 putative Zn2+ binding site [ion binding]; other site 326297011173 AsnC family; Region: AsnC_trans_reg; pfam01037 326297011174 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 326297011175 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E_like proteins; Region: GAT1_Peptidase_E_like; cd03129 326297011176 catalytic triad [active] 326297011177 active site nucleophile [active] 326297011178 5-histidylcysteine sulfoxide synthase; Region: ovoA_Nterm; TIGR04344 326297011179 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 326297011180 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 326297011181 S-adenosylmethionine binding site [chemical binding]; other site 326297011182 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 326297011183 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 326297011184 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 326297011185 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 326297011186 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 326297011187 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 326297011188 dimer interface [polypeptide binding]; other site 326297011189 phosphorylation site [posttranslational modification] 326297011190 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 326297011191 ATP binding site [chemical binding]; other site 326297011192 Mg2+ binding site [ion binding]; other site 326297011193 G-X-G motif; other site 326297011194 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 326297011195 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297011196 active site 326297011197 phosphorylation site [posttranslational modification] 326297011198 intermolecular recognition site; other site 326297011199 dimerization interface [polypeptide binding]; other site 326297011200 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 326297011201 Walker A motif; other site 326297011202 ATP binding site [chemical binding]; other site 326297011203 Walker B motif; other site 326297011204 arginine finger; other site 326297011205 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 326297011206 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 326297011207 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 326297011208 Cation efflux family; Region: Cation_efflux; cl00316 326297011209 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 326297011210 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 326297011211 dimer interface [polypeptide binding]; other site 326297011212 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 326297011213 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297011214 active site 326297011215 phosphorylation site [posttranslational modification] 326297011216 intermolecular recognition site; other site 326297011217 dimerization interface [polypeptide binding]; other site 326297011218 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 326297011219 DNA binding site [nucleotide binding] 326297011220 two-component sensor protein; Provisional; Region: cpxA; PRK09470 326297011221 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 326297011222 dimerization interface [polypeptide binding]; other site 326297011223 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 326297011224 ATP binding site [chemical binding]; other site 326297011225 Mg2+ binding site [ion binding]; other site 326297011226 G-X-G motif; other site 326297011227 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 326297011228 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 326297011229 Walker A motif; other site 326297011230 ATP binding site [chemical binding]; other site 326297011231 Walker B motif; other site 326297011232 arginine finger; other site 326297011233 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 326297011234 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 326297011235 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 326297011236 NAD(P) binding site [chemical binding]; other site 326297011237 catalytic residues [active] 326297011238 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 326297011239 XdhC Rossmann domain; Region: XdhC_C; pfam13478 326297011240 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 326297011241 Ligand binding site; other site 326297011242 metal-binding site 326297011243 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 326297011244 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 326297011245 catalytic loop [active] 326297011246 iron binding site [ion binding]; other site 326297011247 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 326297011248 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 326297011249 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 326297011250 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 326297011251 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 326297011252 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 326297011253 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 326297011254 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 326297011255 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 326297011256 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 326297011257 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 326297011258 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 326297011259 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 326297011260 Methyltransferase domain; Region: Methyltransf_23; pfam13489 326297011261 DTW domain; Region: DTW; cl01221 326297011262 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 326297011263 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 326297011264 putative substrate translocation pore; other site 326297011265 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 326297011266 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297011267 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 326297011268 substrate binding pocket [chemical binding]; other site 326297011269 dimerization interface [polypeptide binding]; other site 326297011270 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 326297011271 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 326297011272 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 326297011273 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 326297011274 putative metal binding site [ion binding]; other site 326297011275 HDOD domain; Region: HDOD; pfam08668 326297011276 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 326297011277 S-adenosylmethionine binding site [chemical binding]; other site 326297011278 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 326297011279 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 326297011280 putative transporter; Provisional; Region: PRK11021 326297011281 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 326297011282 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 326297011283 dimerization interface [polypeptide binding]; other site 326297011284 putative Zn2+ binding site [ion binding]; other site 326297011285 putative DNA binding site [nucleotide binding]; other site 326297011286 AsnC family; Region: AsnC_trans_reg; pfam01037 326297011287 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 326297011288 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 326297011289 dimer interface [polypeptide binding]; other site 326297011290 tetramer interface [polypeptide binding]; other site 326297011291 PYR/PP interface [polypeptide binding]; other site 326297011292 TPP binding site [chemical binding]; other site 326297011293 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 326297011294 TPP-binding site; other site 326297011295 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 326297011296 O-succinylbenzoate synthase; Provisional; Region: PRK05105 326297011297 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 326297011298 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 326297011299 active site 326297011300 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 326297011301 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 326297011302 acyl-activating enzyme (AAE) consensus motif; other site 326297011303 putative AMP binding site [chemical binding]; other site 326297011304 putative active site [active] 326297011305 putative CoA binding site [chemical binding]; other site 326297011306 Transposase IS200 like; Region: Y1_Tnp; pfam01797 326297011307 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 326297011308 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 326297011309 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 326297011310 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 326297011311 DNA binding residues [nucleotide binding] 326297011312 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 326297011313 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 326297011314 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 326297011315 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 326297011316 Walker A/P-loop; other site 326297011317 ATP binding site [chemical binding]; other site 326297011318 Q-loop/lid; other site 326297011319 ABC transporter signature motif; other site 326297011320 Walker B; other site 326297011321 D-loop; other site 326297011322 H-loop/switch region; other site 326297011323 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 326297011324 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 326297011325 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 326297011326 P loop; other site 326297011327 GTP binding site [chemical binding]; other site 326297011328 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 326297011329 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 326297011330 S-adenosylmethionine binding site [chemical binding]; other site 326297011331 Protein of unknown function (DUF1145); Region: DUF1145; pfam06611 326297011332 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 326297011333 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 326297011334 DNA polymerase II large subunit; Provisional; Region: PRK14714 326297011335 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 326297011336 HlyD family secretion protein; Region: HlyD_3; pfam13437 326297011337 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 326297011338 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 326297011339 B1 nucleotide binding pocket [chemical binding]; other site 326297011340 B2 nucleotide binding pocket [chemical binding]; other site 326297011341 CAS motifs; other site 326297011342 active site 326297011343 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 326297011344 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 326297011345 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 326297011346 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 326297011347 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 326297011348 heme-binding site [chemical binding]; other site 326297011349 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 326297011350 aromatic amino acid transport protein; Region: araaP; TIGR00837 326297011351 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 326297011352 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 326297011353 putative acyl-acceptor binding pocket; other site 326297011354 LexA repressor; Validated; Region: PRK00215 326297011355 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 326297011356 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 326297011357 Catalytic site [active] 326297011358 Cell division inhibitor SulA; Region: SulA; cl01880 326297011359 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 326297011360 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 326297011361 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 326297011362 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 326297011363 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 326297011364 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 326297011365 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 326297011366 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 326297011367 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 326297011368 Subunit I/III interface [polypeptide binding]; other site 326297011369 D-pathway; other site 326297011370 Subunit I/VIIc interface [polypeptide binding]; other site 326297011371 Subunit I/IV interface [polypeptide binding]; other site 326297011372 Subunit I/II interface [polypeptide binding]; other site 326297011373 Low-spin heme (heme a) binding site [chemical binding]; other site 326297011374 Subunit I/VIIa interface [polypeptide binding]; other site 326297011375 Subunit I/VIa interface [polypeptide binding]; other site 326297011376 Dimer interface; other site 326297011377 Putative water exit pathway; other site 326297011378 Binuclear center (heme a3/CuB) [ion binding]; other site 326297011379 K-pathway; other site 326297011380 Subunit I/Vb interface [polypeptide binding]; other site 326297011381 Putative proton exit pathway; other site 326297011382 Subunit I/VIb interface; other site 326297011383 Subunit I/VIc interface [polypeptide binding]; other site 326297011384 Electron transfer pathway; other site 326297011385 Subunit I/VIIIb interface [polypeptide binding]; other site 326297011386 Subunit I/VIIb interface [polypeptide binding]; other site 326297011387 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 326297011388 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 326297011389 Subunit III/VIIa interface [polypeptide binding]; other site 326297011390 Phospholipid binding site [chemical binding]; other site 326297011391 Subunit I/III interface [polypeptide binding]; other site 326297011392 Subunit III/VIb interface [polypeptide binding]; other site 326297011393 Subunit III/VIa interface; other site 326297011394 Subunit III/Vb interface [polypeptide binding]; other site 326297011395 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 326297011396 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 326297011397 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 326297011398 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 326297011399 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 326297011400 UbiA prenyltransferase family; Region: UbiA; pfam01040 326297011401 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 326297011402 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 326297011403 Cu(I) binding site [ion binding]; other site 326297011404 STAS domain; Region: STAS_2; pfam13466 326297011405 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 326297011406 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297011407 active site 326297011408 phosphorylation site [posttranslational modification] 326297011409 intermolecular recognition site; other site 326297011410 dimerization interface [polypeptide binding]; other site 326297011411 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 326297011412 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 326297011413 putative binding surface; other site 326297011414 active site 326297011415 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 326297011416 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 326297011417 ATP binding site [chemical binding]; other site 326297011418 Mg2+ binding site [ion binding]; other site 326297011419 G-X-G motif; other site 326297011420 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 326297011421 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 326297011422 putative CheA interaction surface; other site 326297011423 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 326297011424 PAS domain; Region: PAS_9; pfam13426 326297011425 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 326297011426 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 326297011427 dimer interface [polypeptide binding]; other site 326297011428 putative CheW interface [polypeptide binding]; other site 326297011429 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 326297011430 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 326297011431 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 326297011432 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 326297011433 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297011434 active site 326297011435 phosphorylation site [posttranslational modification] 326297011436 intermolecular recognition site; other site 326297011437 dimerization interface [polypeptide binding]; other site 326297011438 CheB methylesterase; Region: CheB_methylest; pfam01339 326297011439 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 326297011440 putative active site [active] 326297011441 putative metal binding site [ion binding]; other site 326297011442 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 326297011443 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 326297011444 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 326297011445 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 326297011446 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 326297011447 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 326297011448 putative active site [active] 326297011449 Zn binding site [ion binding]; other site 326297011450 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 326297011451 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 326297011452 active site 326297011453 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 326297011454 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 326297011455 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 326297011456 Sulfatase; Region: Sulfatase; pfam00884 326297011457 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 326297011458 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 326297011459 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 326297011460 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 326297011461 RNA binding site [nucleotide binding]; other site 326297011462 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 326297011463 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 326297011464 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 326297011465 osmolarity response regulator; Provisional; Region: ompR; PRK09468 326297011466 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297011467 active site 326297011468 phosphorylation site [posttranslational modification] 326297011469 intermolecular recognition site; other site 326297011470 dimerization interface [polypeptide binding]; other site 326297011471 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 326297011472 DNA binding site [nucleotide binding] 326297011473 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 326297011474 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 326297011475 dimerization interface [polypeptide binding]; other site 326297011476 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 326297011477 dimer interface [polypeptide binding]; other site 326297011478 phosphorylation site [posttranslational modification] 326297011479 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 326297011480 ATP binding site [chemical binding]; other site 326297011481 Mg2+ binding site [ion binding]; other site 326297011482 G-X-G motif; other site 326297011483 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 326297011484 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 326297011485 dimerization interface [polypeptide binding]; other site 326297011486 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 326297011487 dimer interface [polypeptide binding]; other site 326297011488 putative CheW interface [polypeptide binding]; other site 326297011489 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 326297011490 catalytic triad [active] 326297011491 dimer interface [polypeptide binding]; other site 326297011492 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 326297011493 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 326297011494 Coenzyme A binding pocket [chemical binding]; other site 326297011495 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 326297011496 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 326297011497 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 326297011498 substrate binding site [chemical binding]; other site 326297011499 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 326297011500 ATP binding site [chemical binding]; other site 326297011501 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 326297011502 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 326297011503 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 326297011504 MOSC domain; Region: MOSC; pfam03473 326297011505 3-alpha domain; Region: 3-alpha; pfam03475 326297011506 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 326297011507 dimerization interface [polypeptide binding]; other site 326297011508 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 326297011509 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 326297011510 dimer interface [polypeptide binding]; other site 326297011511 putative CheW interface [polypeptide binding]; other site 326297011512 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 326297011513 hydroxyglutarate oxidase; Provisional; Region: PRK11728 326297011514 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 326297011515 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 326297011516 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 326297011517 FeS/SAM binding site; other site 326297011518 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 326297011519 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 326297011520 MPT binding site; other site 326297011521 trimer interface [polypeptide binding]; other site 326297011522 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 326297011523 trimer interface [polypeptide binding]; other site 326297011524 dimer interface [polypeptide binding]; other site 326297011525 putative active site [active] 326297011526 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 326297011527 MoaE interaction surface [polypeptide binding]; other site 326297011528 MoeB interaction surface [polypeptide binding]; other site 326297011529 thiocarboxylated glycine; other site 326297011530 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 326297011531 MoaE homodimer interface [polypeptide binding]; other site 326297011532 MoaD interaction [polypeptide binding]; other site 326297011533 active site residues [active] 326297011534 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 326297011535 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 326297011536 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 326297011537 dimer interface [polypeptide binding]; other site 326297011538 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 326297011539 conserved gate region; other site 326297011540 putative PBP binding loops; other site 326297011541 ABC-ATPase subunit interface; other site 326297011542 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 326297011543 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 326297011544 Walker A/P-loop; other site 326297011545 ATP binding site [chemical binding]; other site 326297011546 Q-loop/lid; other site 326297011547 ABC transporter signature motif; other site 326297011548 Walker B; other site 326297011549 D-loop; other site 326297011550 H-loop/switch region; other site 326297011551 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 326297011552 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 326297011553 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297011554 active site 326297011555 phosphorylation site [posttranslational modification] 326297011556 intermolecular recognition site; other site 326297011557 dimerization interface [polypeptide binding]; other site 326297011558 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 326297011559 DNA binding site [nucleotide binding] 326297011560 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 326297011561 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 326297011562 dimerization interface [polypeptide binding]; other site 326297011563 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 326297011564 dimer interface [polypeptide binding]; other site 326297011565 phosphorylation site [posttranslational modification] 326297011566 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 326297011567 ATP binding site [chemical binding]; other site 326297011568 Mg2+ binding site [ion binding]; other site 326297011569 G-X-G motif; other site 326297011570 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 326297011571 active site 326297011572 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297011573 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297011574 metal binding site [ion binding]; metal-binding site 326297011575 active site 326297011576 I-site; other site 326297011577 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 326297011578 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 326297011579 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297011580 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 326297011581 dimerization interface [polypeptide binding]; other site 326297011582 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 326297011583 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 326297011584 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 326297011585 active site 326297011586 Pirin-related protein [General function prediction only]; Region: COG1741 326297011587 Pirin; Region: Pirin; pfam02678 326297011588 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 326297011589 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_19; cd07262 326297011590 glutathione reductase; Validated; Region: PRK06116 326297011591 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 326297011592 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 326297011593 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 326297011594 oligopeptidase A; Provisional; Region: PRK10911 326297011595 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 326297011596 active site 326297011597 Zn binding site [ion binding]; other site 326297011598 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 326297011599 active site 326297011600 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 326297011601 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 326297011602 C-terminal domain interface [polypeptide binding]; other site 326297011603 GSH binding site (G-site) [chemical binding]; other site 326297011604 dimer interface [polypeptide binding]; other site 326297011605 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 326297011606 N-terminal domain interface [polypeptide binding]; other site 326297011607 dimer interface [polypeptide binding]; other site 326297011608 substrate binding pocket (H-site) [chemical binding]; other site 326297011609 Transcriptional regulator [Transcription]; Region: LysR; COG0583 326297011610 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297011611 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 326297011612 putative effector binding pocket; other site 326297011613 dimerization interface [polypeptide binding]; other site 326297011614 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 326297011615 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 326297011616 NAD(P) binding site [chemical binding]; other site 326297011617 active site 326297011618 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 326297011619 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 326297011620 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 326297011621 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 326297011622 HlyD family secretion protein; Region: HlyD_3; pfam13437 326297011623 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 326297011624 Protein export membrane protein; Region: SecD_SecF; cl14618 326297011625 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 326297011626 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 326297011627 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 326297011628 catalytic triad [active] 326297011629 putative active site [active] 326297011630 AbgT putative transporter family; Region: ABG_transport; pfam03806 326297011631 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 326297011632 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 326297011633 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 326297011634 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 326297011635 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 326297011636 N-acetyl-D-glucosamine binding site [chemical binding]; other site 326297011637 catalytic residue [active] 326297011638 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 326297011639 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 326297011640 S-adenosylmethionine binding site [chemical binding]; other site 326297011641 EamA-like transporter family; Region: EamA; pfam00892 326297011642 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 326297011643 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 326297011644 MarR family; Region: MarR; pfam01047 326297011645 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 326297011646 YcaO domain protein; Region: TIGR03549 326297011647 OsmC-like protein; Region: OsmC; pfam02566 326297011648 YcaO-like family; Region: YcaO; pfam02624 326297011649 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 326297011650 active site 326297011651 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 326297011652 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 326297011653 acyl-activating enzyme (AAE) consensus motif; other site 326297011654 putative AMP binding site [chemical binding]; other site 326297011655 putative active site [active] 326297011656 putative CoA binding site [chemical binding]; other site 326297011657 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 326297011658 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 326297011659 Walker A/P-loop; other site 326297011660 ATP binding site [chemical binding]; other site 326297011661 Q-loop/lid; other site 326297011662 ABC transporter signature motif; other site 326297011663 Walker B; other site 326297011664 D-loop; other site 326297011665 H-loop/switch region; other site 326297011666 Predicted transcriptional regulators [Transcription]; Region: COG1725 326297011667 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 326297011668 DNA-binding site [nucleotide binding]; DNA binding site 326297011669 TAP-like protein; Region: Abhydrolase_4; pfam08386 326297011670 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 326297011671 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 326297011672 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 326297011673 Walker A/P-loop; other site 326297011674 ATP binding site [chemical binding]; other site 326297011675 Q-loop/lid; other site 326297011676 ABC transporter signature motif; other site 326297011677 Walker B; other site 326297011678 D-loop; other site 326297011679 H-loop/switch region; other site 326297011680 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 326297011681 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 326297011682 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 326297011683 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 326297011684 putative dimer interface [polypeptide binding]; other site 326297011685 PAS fold; Region: PAS_4; pfam08448 326297011686 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297011687 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297011688 metal binding site [ion binding]; metal-binding site 326297011689 active site 326297011690 I-site; other site 326297011691 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 326297011692 catalytic residues [active] 326297011693 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 326297011694 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 326297011695 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 326297011696 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 326297011697 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 326297011698 Walker A/P-loop; other site 326297011699 ATP binding site [chemical binding]; other site 326297011700 Q-loop/lid; other site 326297011701 ABC transporter signature motif; other site 326297011702 Walker B; other site 326297011703 D-loop; other site 326297011704 H-loop/switch region; other site 326297011705 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 326297011706 HlyD family secretion protein; Region: HlyD_3; pfam13437 326297011707 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 326297011708 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 326297011709 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 326297011710 active site 326297011711 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 326297011712 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 326297011713 conserved cys residue [active] 326297011714 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 326297011715 Response regulator receiver domain; Region: Response_reg; pfam00072 326297011716 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 326297011717 active site 326297011718 phosphorylation site [posttranslational modification] 326297011719 intermolecular recognition site; other site 326297011720 dimerization interface [polypeptide binding]; other site 326297011721 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 326297011722 putative binding surface; other site 326297011723 active site 326297011724 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 326297011725 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 326297011726 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 326297011727 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 326297011728 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 326297011729 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 326297011730 Uncharacterized conserved protein [Function unknown]; Region: COG3791 326297011731 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 326297011732 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 326297011733 dimer interface [polypeptide binding]; other site 326297011734 putative CheW interface [polypeptide binding]; other site 326297011735 CAAX protease self-immunity; Region: Abi; pfam02517 326297011736 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297011737 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297011738 metal binding site [ion binding]; metal-binding site 326297011739 active site 326297011740 I-site; other site 326297011741 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 326297011742 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 326297011743 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 326297011744 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 326297011745 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 326297011746 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297011747 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297011748 metal binding site [ion binding]; metal-binding site 326297011749 active site 326297011750 I-site; other site 326297011751 coproporphyrinogen III oxidase; Provisional; Region: PRK08629 326297011752 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 326297011753 FeS/SAM binding site; other site 326297011754 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 326297011755 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 326297011756 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 326297011757 dimerization interface [polypeptide binding]; other site 326297011758 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 326297011759 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 326297011760 inhibitor-cofactor binding pocket; inhibition site 326297011761 pyridoxal 5'-phosphate binding site [chemical binding]; other site 326297011762 catalytic residue [active] 326297011763 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 326297011764 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 326297011765 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 326297011766 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 326297011767 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 326297011768 [4Fe-4S] binding site [ion binding]; other site 326297011769 molybdopterin cofactor binding site; other site 326297011770 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 326297011771 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 326297011772 molybdopterin cofactor binding site; other site 326297011773 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 326297011774 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 326297011775 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 326297011776 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 326297011777 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 326297011778 [4Fe-4S] binding site [ion binding]; other site 326297011779 molybdopterin cofactor binding site; other site 326297011780 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 326297011781 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 326297011782 molybdopterin cofactor binding site; other site 326297011783 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 326297011784 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 326297011785 Ferredoxin [Energy production and conversion]; Region: COG1146 326297011786 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 326297011787 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 326297011788 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 326297011789 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 326297011790 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 326297011791 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 326297011792 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 326297011793 Helix-turn-helix domain; Region: HTH_17; pfam12728 326297011794 PBP superfamily domain; Region: PBP_like; pfam12727 326297011795 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 326297011796 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 326297011797 S-adenosylmethionine binding site [chemical binding]; other site 326297011798 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 326297011799 Chorismate lyase; Region: Chor_lyase; cl01230 326297011800 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4412 326297011801 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 326297011802 FOG: PKD repeat [General function prediction only]; Region: COG3291 326297011803 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 326297011804 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 326297011805 alpha-glucosidase; Provisional; Region: PRK10137 326297011806 Trehalase; Region: Trehalase; cl17346 326297011807 putative antibiotic transporter; Provisional; Region: PRK10739 326297011808 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 326297011809 PAS domain; Region: PAS_9; pfam13426 326297011810 putative active site [active] 326297011811 heme pocket [chemical binding]; other site 326297011812 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 326297011813 PAS fold; Region: PAS_3; pfam08447 326297011814 putative active site [active] 326297011815 heme pocket [chemical binding]; other site 326297011816 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 326297011817 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 326297011818 metal binding site [ion binding]; metal-binding site 326297011819 active site 326297011820 I-site; other site 326297011821 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 326297011822 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 326297011823 NRDE protein; Region: NRDE; cl01315 326297011824 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 326297011825 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 326297011826 putative acyl-acceptor binding pocket; other site 326297011827 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 326297011828 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 326297011829 Mechanosensitive ion channel; Region: MS_channel; pfam00924 326297011830 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 326297011831 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 326297011832 DNA topoisomerase IV subunit A; Provisional; Region: PRK09631 326297011833 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 326297011834 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 326297011835 substrate binding site [chemical binding]; other site 326297011836 oxyanion hole (OAH) forming residues; other site 326297011837 trimer interface [polypeptide binding]; other site 326297011838 Predicted membrane protein [Function unknown]; Region: COG3205 326297011839 Domain of unknown function (DUF1996); Region: DUF1996; pfam09362 326297011840 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 326297011841 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 326297011842 glutaminase active site [active] 326297011843 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 326297011844 dimer interface [polypeptide binding]; other site 326297011845 active site 326297011846 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 326297011847 dimer interface [polypeptide binding]; other site 326297011848 active site 326297011849 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 326297011850 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 326297011851 putative DNA binding site [nucleotide binding]; other site 326297011852 putative Zn2+ binding site [ion binding]; other site 326297011853 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 326297011854 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 326297011855 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 326297011856 N-terminal plug; other site 326297011857 ligand-binding site [chemical binding]; other site 326297011858 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 326297011859 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 326297011860 Substrate binding site; other site 326297011861 Mg++ binding site; other site 326297011862 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 326297011863 active site 326297011864 substrate binding site [chemical binding]; other site 326297011865 CoA binding site [chemical binding]; other site 326297011866 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 326297011867 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 326297011868 gamma subunit interface [polypeptide binding]; other site 326297011869 epsilon subunit interface [polypeptide binding]; other site 326297011870 LBP interface [polypeptide binding]; other site 326297011871 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 326297011872 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 326297011873 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 326297011874 alpha subunit interaction interface [polypeptide binding]; other site 326297011875 Walker A motif; other site 326297011876 ATP binding site [chemical binding]; other site 326297011877 Walker B motif; other site 326297011878 inhibitor binding site; inhibition site 326297011879 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 326297011880 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 326297011881 core domain interface [polypeptide binding]; other site 326297011882 delta subunit interface [polypeptide binding]; other site 326297011883 epsilon subunit interface [polypeptide binding]; other site 326297011884 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 326297011885 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 326297011886 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 326297011887 Walker A motif; other site 326297011888 ATP binding site [chemical binding]; other site 326297011889 Walker B motif; other site 326297011890 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 326297011891 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 326297011892 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 326297011893 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 326297011894 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 326297011895 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 326297011896 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 326297011897 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 326297011898 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 326297011899 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 326297011900 ParB-like nuclease domain; Region: ParBc; pfam02195 326297011901 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 326297011902 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 326297011903 P-loop; other site 326297011904 Magnesium ion binding site [ion binding]; other site 326297011905 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 326297011906 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 326297011907 S-adenosylmethionine binding site [chemical binding]; other site 326297011908 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 326297011909 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 326297011910 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932