-- dump date 20120504_161547 -- class Genbank::misc_feature -- table misc_feature_note -- id note 458817000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 458817000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 458817000003 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 458817000004 Walker A motif; other site 458817000005 ATP binding site [chemical binding]; other site 458817000006 Walker B motif; other site 458817000007 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817000008 arginine finger; other site 458817000009 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 458817000010 DnaA box-binding interface [nucleotide binding]; other site 458817000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 458817000012 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 458817000013 putative DNA binding surface [nucleotide binding]; other site 458817000014 dimer interface [polypeptide binding]; other site 458817000015 beta-clamp/clamp loader binding surface; other site 458817000016 beta-clamp/translesion DNA polymerase binding surface; other site 458817000017 recombination protein F; Reviewed; Region: recF; PRK00064 458817000018 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817000019 Walker A/P-loop; other site 458817000020 ATP binding site [chemical binding]; other site 458817000021 Q-loop/lid; other site 458817000022 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 458817000023 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 458817000024 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 458817000025 anchoring element; other site 458817000026 dimer interface [polypeptide binding]; other site 458817000027 ATP binding site [chemical binding]; other site 458817000028 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 458817000029 active site 458817000030 putative metal-binding site [ion binding]; other site 458817000031 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 458817000032 HDOD domain; Region: HDOD; pfam08668 458817000033 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 458817000034 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 458817000035 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 458817000036 dimer interface [polypeptide binding]; other site 458817000037 motif 1; other site 458817000038 active site 458817000039 motif 2; other site 458817000040 motif 3; other site 458817000041 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 458817000042 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 458817000043 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 458817000044 translocation protein TolB; Provisional; Region: tolB; PRK02889 458817000045 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 458817000046 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 458817000047 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 458817000048 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 458817000049 active site 458817000050 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 458817000051 CPxP motif; other site 458817000052 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 458817000053 putative deacylase active site [active] 458817000054 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458817000055 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 458817000056 Coenzyme A binding pocket [chemical binding]; other site 458817000057 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 458817000058 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 458817000059 dimer interface [polypeptide binding]; other site 458817000060 active site 458817000061 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 458817000062 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 458817000063 substrate binding site [chemical binding]; other site 458817000064 oxyanion hole (OAH) forming residues; other site 458817000065 trimer interface [polypeptide binding]; other site 458817000066 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817000067 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 458817000068 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 458817000069 proline dipeptidase; Provisional; Region: PRK13607 458817000070 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 458817000071 active site 458817000072 hypothetical protein; Provisional; Region: PRK11568 458817000073 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 458817000074 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 458817000075 Cation transport protein; Region: TrkH; cl10514 458817000076 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 458817000077 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 458817000078 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 458817000079 dimerization interface [polypeptide binding]; other site 458817000080 putative DNA binding site [nucleotide binding]; other site 458817000081 putative Zn2+ binding site [ion binding]; other site 458817000082 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 458817000083 Cation transport protein; Region: TrkH; cl10514 458817000084 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 458817000085 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 458817000086 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817000087 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 458817000088 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817000089 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 458817000090 16S rRNA methyltransferase B; Provisional; Region: PRK10901 458817000091 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 458817000092 putative RNA binding site [nucleotide binding]; other site 458817000093 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 458817000094 S-adenosylmethionine binding site [chemical binding]; other site 458817000095 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 458817000096 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 458817000097 putative active site [active] 458817000098 substrate binding site [chemical binding]; other site 458817000099 putative cosubstrate binding site; other site 458817000100 catalytic site [active] 458817000101 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 458817000102 substrate binding site [chemical binding]; other site 458817000103 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 458817000104 active site 458817000105 catalytic residues [active] 458817000106 metal binding site [ion binding]; metal-binding site 458817000107 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 458817000108 hypothetical protein; Provisional; Region: PRK10736 458817000109 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 458817000110 Protein of unknown function (DUF494); Region: DUF494; cl01103 458817000111 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 458817000112 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 458817000113 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 458817000114 DNA topoisomerase I; Validated; Region: PRK06599 458817000115 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 458817000116 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 458817000117 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 458817000118 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 458817000119 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 458817000120 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 458817000121 shikimate binding site; other site 458817000122 NAD(P) binding site [chemical binding]; other site 458817000123 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 458817000124 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 458817000125 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 458817000126 trimer interface [polypeptide binding]; other site 458817000127 putative metal binding site [ion binding]; other site 458817000128 Flagellin N-methylase; Region: FliB; cl00497 458817000129 Helix-turn-helix domains; Region: HTH; cl00088 458817000130 Predicted transcriptional regulator [Transcription]; Region: COG1959 458817000131 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 458817000132 NodB motif; other site 458817000133 putative active site [active] 458817000134 putative catalytic site [active] 458817000135 Zn binding site [ion binding]; other site 458817000136 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 458817000137 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 458817000138 protein binding site [polypeptide binding]; other site 458817000139 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 458817000140 Catalytic dyad [active] 458817000141 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 458817000142 Sulfatase; Region: Sulfatase; cl10460 458817000143 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 458817000144 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 458817000145 active site residue [active] 458817000146 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 458817000147 SecA binding site; other site 458817000148 Preprotein binding site; other site 458817000149 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 458817000150 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817000151 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 458817000152 HI0933-like protein; Region: HI0933_like; pfam03486 458817000153 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817000154 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817000155 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 458817000156 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817000157 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 458817000158 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 458817000159 Walker A/P-loop; other site 458817000160 ATP binding site [chemical binding]; other site 458817000161 Q-loop/lid; other site 458817000162 ABC transporter signature motif; other site 458817000163 Walker B; other site 458817000164 D-loop; other site 458817000165 H-loop/switch region; other site 458817000166 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 458817000167 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 458817000168 ABC-2 type transporter; Region: ABC2_membrane; cl11417 458817000169 NlpC/P60 family; Region: NLPC_P60; cl11438 458817000170 Surface antigen; Region: Bac_surface_Ag; cl03097 458817000171 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 458817000172 MPT binding site; other site 458817000173 trimer interface [polypeptide binding]; other site 458817000174 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 458817000175 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 458817000176 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 458817000177 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 458817000178 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 458817000179 dimerization interface [polypeptide binding]; other site 458817000180 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 458817000181 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817000182 dimer interface [polypeptide binding]; other site 458817000183 putative CheW interface [polypeptide binding]; other site 458817000184 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 458817000185 ABC-2 type transporter; Region: ABC2_membrane; cl11417 458817000186 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 458817000187 NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake. NatB possess six putative membrane spanning regions at its...; Region: ABC_NatA_sodium_exporter; cd03266 458817000188 Walker A/P-loop; other site 458817000189 ATP binding site [chemical binding]; other site 458817000190 Q-loop/lid; other site 458817000191 ABC transporter signature motif; other site 458817000192 Walker B; other site 458817000193 D-loop; other site 458817000194 H-loop/switch region; other site 458817000195 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 458817000196 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458817000197 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 458817000198 AMP-binding enzyme; Region: AMP-binding; cl15778 458817000199 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 458817000200 active site 458817000201 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 458817000202 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 458817000203 active site 458817000204 2,3-diketo-5-methylthio-1-phosphopentane phosphatase; Region: enolase-ppase; TIGR01691 458817000205 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 458817000206 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 458817000207 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 458817000208 N-acetyl-D-glucosamine binding site [chemical binding]; other site 458817000209 catalytic residue [active] 458817000210 AAA domain; Region: AAA_21; pfam13304 458817000211 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 458817000212 imidazolonepropionase; Validated; Region: PRK09356 458817000213 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 458817000214 active site 458817000215 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 458817000216 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458817000217 DNA-binding site [nucleotide binding]; DNA binding site 458817000218 UTRA domain; Region: UTRA; cl01230 458817000219 urocanate hydratase; Provisional; Region: PRK05414 458817000220 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 458817000221 active sites [active] 458817000222 tetramer interface [polypeptide binding]; other site 458817000223 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 458817000224 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817000225 Helix-turn-helix domains; Region: HTH; cl00088 458817000226 The C-terminal substrate-domain of LysR-type transcriptional regulator, OccR, involved in the catabolism of octopine, contains the type 2 periplasmic binding fold; Region: PBP2_OccR; cd08457 458817000227 putative dimerization interface [polypeptide binding]; other site 458817000228 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 458817000229 homotrimer interaction site [polypeptide binding]; other site 458817000230 putative active site [active] 458817000231 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 458817000232 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 458817000233 D-cysteine desulfhydrase; Validated; Region: PRK03910 458817000234 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 458817000235 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458817000236 catalytic residue [active] 458817000237 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 458817000238 Protein of unknown function (DUF3157); Region: DUF3157; pfam11355 458817000239 putative alcohol dehydrogenase; Provisional; Region: PRK09860 458817000240 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 458817000241 dimer interface [polypeptide binding]; other site 458817000242 active site 458817000243 metal binding site [ion binding]; metal-binding site 458817000244 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 458817000245 Mechanosensitive ion channel; Region: MS_channel; pfam00924 458817000246 LysE type translocator; Region: LysE; cl00565 458817000247 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 458817000248 putative acyl-acceptor binding pocket; other site 458817000249 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 458817000250 NRDE protein; Region: NRDE; cl01315 458817000251 MarC family integral membrane protein; Region: MarC; cl00919 458817000252 alpha-glucosidase; Provisional; Region: PRK10137 458817000253 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 458817000254 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4412 458817000255 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 458817000256 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 458817000257 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 458817000258 UTRA domain; Region: UTRA; cl01230 458817000259 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 458817000260 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; cl15754 458817000261 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 458817000262 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 458817000263 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 458817000264 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 458817000265 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 458817000266 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 458817000267 Ferredoxin [Energy production and conversion]; Region: COG1146 458817000268 4Fe-4S binding domain; Region: Fer4; cl02805 458817000269 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 458817000270 4Fe-4S binding domain; Region: Fer4; cl02805 458817000271 4Fe-4S binding domain; Region: Fer4; cl02805 458817000272 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 458817000273 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 458817000274 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 458817000275 [4Fe-4S] binding site [ion binding]; other site 458817000276 molybdopterin cofactor binding site; other site 458817000277 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 458817000278 molybdopterin cofactor binding site; other site 458817000279 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 458817000280 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 458817000281 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 458817000282 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 458817000283 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 458817000284 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 458817000285 [4Fe-4S] binding site [ion binding]; other site 458817000286 molybdopterin cofactor binding site; other site 458817000287 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 458817000288 molybdopterin cofactor binding site; other site 458817000289 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 458817000290 4Fe-4S binding domain; Region: Fer4; cl02805 458817000291 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 458817000292 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 458817000293 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 458817000294 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 458817000295 [4Fe-4S] binding site [ion binding]; other site 458817000296 molybdopterin cofactor binding site; other site 458817000297 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 458817000298 molybdopterin cofactor binding site; other site 458817000299 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 458817000300 4Fe-4S binding domain; Region: Fer4; cl02805 458817000301 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 458817000302 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 458817000303 coproporphyrinogen III oxidase; Provisional; Region: PRK08629 458817000304 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 458817000305 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 458817000306 substrate binding site [chemical binding]; other site 458817000307 ATP binding site [chemical binding]; other site 458817000308 putative diguanylate cyclase YedQ; Provisional; Region: PRK15426 458817000309 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817000310 metal binding site [ion binding]; metal-binding site 458817000311 active site 458817000312 I-site; other site 458817000313 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 458817000314 MOSC domain; Region: MOSC; pfam03473 458817000315 3-alpha domain; Region: 3-alpha; pfam03475 458817000316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296; cl15800 458817000317 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 458817000318 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817000319 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 458817000320 Ferredoxin [Energy production and conversion]; Region: COG1146 458817000321 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 458817000322 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 458817000323 FeS/SAM binding site; other site 458817000324 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 458817000325 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 458817000326 MPT binding site; other site 458817000327 trimer interface [polypeptide binding]; other site 458817000328 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 458817000329 trimer interface [polypeptide binding]; other site 458817000330 dimer interface [polypeptide binding]; other site 458817000331 putative active site [active] 458817000332 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 458817000333 MoaE interaction surface [polypeptide binding]; other site 458817000334 MoeB interaction surface [polypeptide binding]; other site 458817000335 thiocarboxylated glycine; other site 458817000336 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 458817000337 MoaE homodimer interface [polypeptide binding]; other site 458817000338 MoaD interaction [polypeptide binding]; other site 458817000339 active site residues [active] 458817000340 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 458817000341 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 458817000342 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 458817000343 dimer interface [polypeptide binding]; other site 458817000344 conserved gate region; other site 458817000345 putative PBP binding loops; other site 458817000346 ABC-ATPase subunit interface; other site 458817000347 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817000348 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 458817000349 Walker A/P-loop; other site 458817000350 ATP binding site [chemical binding]; other site 458817000351 Q-loop/lid; other site 458817000352 ABC transporter signature motif; other site 458817000353 Walker B; other site 458817000354 D-loop; other site 458817000355 H-loop/switch region; other site 458817000356 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 458817000357 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 458817000358 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 458817000359 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817000360 active site 458817000361 phosphorylation site [posttranslational modification] 458817000362 intermolecular recognition site; other site 458817000363 dimerization interface [polypeptide binding]; other site 458817000364 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 458817000365 DNA binding site [nucleotide binding] 458817000366 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 458817000367 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 458817000368 dimer interface [polypeptide binding]; other site 458817000369 phosphorylation site [posttranslational modification] 458817000370 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 458817000371 ATP binding site [chemical binding]; other site 458817000372 Mg2+ binding site [ion binding]; other site 458817000373 G-X-G motif; other site 458817000374 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 458817000375 active site 458817000376 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 458817000377 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 458817000378 active site 458817000379 (T/H)XGH motif; other site 458817000380 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 458817000381 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 458817000382 Ligand binding site; other site 458817000383 Putative Catalytic site; other site 458817000384 DXD motif; other site 458817000385 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 458817000386 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 458817000387 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 458817000388 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 458817000389 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 458817000390 DNA binding site [nucleotide binding] 458817000391 catalytic residue [active] 458817000392 H2TH interface [polypeptide binding]; other site 458817000393 putative catalytic residues [active] 458817000394 turnover-facilitating residue; other site 458817000395 intercalation triad [nucleotide binding]; other site 458817000396 8OG recognition residue [nucleotide binding]; other site 458817000397 putative reading head residues; other site 458817000398 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 458817000399 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 458817000400 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 458817000401 BRO family, N-terminal domain; Region: Bro-N; cl10591 458817000402 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 458817000403 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 458817000404 FeS/SAM binding site; other site 458817000405 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 458817000406 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoeA; Provisional; Region: PRK14491 458817000407 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 458817000408 Walker A motif; other site 458817000409 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 458817000410 dimer interface [polypeptide binding]; other site 458817000411 putative functional site; other site 458817000412 putative MPT binding site; other site 458817000413 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 458817000414 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 458817000415 GTP binding site; other site 458817000416 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 458817000417 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 458817000418 Walker A/P-loop; other site 458817000419 ATP binding site [chemical binding]; other site 458817000420 Q-loop/lid; other site 458817000421 ABC transporter signature motif; other site 458817000422 Walker B; other site 458817000423 D-loop; other site 458817000424 H-loop/switch region; other site 458817000425 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 458817000426 dimer interface [polypeptide binding]; other site 458817000427 conserved gate region; other site 458817000428 putative PBP binding loops; other site 458817000429 ABC-ATPase subunit interface; other site 458817000430 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 458817000431 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 458817000432 dimerization interface [polypeptide binding]; other site 458817000433 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 458817000434 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817000435 active site 458817000436 phosphorylation site [posttranslational modification] 458817000437 intermolecular recognition site; other site 458817000438 dimerization interface [polypeptide binding]; other site 458817000439 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 458817000440 Walker A motif; other site 458817000441 ATP binding site [chemical binding]; other site 458817000442 Walker B motif; other site 458817000443 arginine finger; other site 458817000444 Helix-turn-helix domains; Region: HTH; cl00088 458817000445 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 458817000446 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 458817000447 dimer interface [polypeptide binding]; other site 458817000448 phosphorylation site [posttranslational modification] 458817000449 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 458817000450 ATP binding site [chemical binding]; other site 458817000451 G-X-G motif; other site 458817000452 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458817000453 Coenzyme A binding pocket [chemical binding]; other site 458817000454 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 458817000455 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 458817000456 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 458817000457 chorismate binding enzyme; Region: Chorismate_bind; cl10555 458817000458 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 458817000459 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 458817000460 N-terminal plug; other site 458817000461 ligand-binding site [chemical binding]; other site 458817000462 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 458817000463 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 458817000464 Walker A/P-loop; other site 458817000465 ATP binding site [chemical binding]; other site 458817000466 Q-loop/lid; other site 458817000467 ABC transporter signature motif; other site 458817000468 Walker B; other site 458817000469 D-loop; other site 458817000470 H-loop/switch region; other site 458817000471 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 458817000472 Walker A/P-loop; other site 458817000473 ATP binding site [chemical binding]; other site 458817000474 Q-loop/lid; other site 458817000475 ABC transporter signature motif; other site 458817000476 Walker B; other site 458817000477 D-loop; other site 458817000478 H-loop/switch region; other site 458817000479 Cobalt transport protein; Region: CbiQ; cl00463 458817000480 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 458817000481 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 458817000482 Zn2+ binding site [ion binding]; other site 458817000483 Mg2+ binding site [ion binding]; other site 458817000484 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 458817000485 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 458817000486 conserved cys residue [active] 458817000487 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 458817000488 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 458817000489 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 458817000490 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458817000491 catalytic residue [active] 458817000492 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 458817000493 homotrimer interaction site [polypeptide binding]; other site 458817000494 putative active site [active] 458817000495 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 458817000496 YheO-like PAS domain; Region: PAS_6; pfam08348 458817000497 Helix-turn-helix domains; Region: HTH; cl00088 458817000498 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 458817000499 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 458817000500 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 458817000501 active site 458817000502 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 458817000503 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 458817000504 EamA-like transporter family; Region: EamA; cl01037 458817000505 EamA-like transporter family; Region: EamA; cl01037 458817000506 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 458817000507 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 458817000508 metal binding site [ion binding]; metal-binding site 458817000509 putative dimer interface [polypeptide binding]; other site 458817000510 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 458817000511 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 458817000512 putative substrate translocation pore; other site 458817000513 transcriptional regulator NarL; Provisional; Region: PRK10651 458817000514 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817000515 active site 458817000516 phosphorylation site [posttranslational modification] 458817000517 intermolecular recognition site; other site 458817000518 dimerization interface [polypeptide binding]; other site 458817000519 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 458817000520 DNA binding residues [nucleotide binding] 458817000521 dimerization interface [polypeptide binding]; other site 458817000522 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 458817000523 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 458817000524 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 458817000525 dimerization interface [polypeptide binding]; other site 458817000526 Histidine kinase; Region: HisKA_3; pfam07730 458817000527 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 458817000528 ATP binding site [chemical binding]; other site 458817000529 Mg2+ binding site [ion binding]; other site 458817000530 G-X-G motif; other site 458817000531 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 458817000532 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 458817000533 respiratory nitrate reductase, alpha subunit; Region: narG; TIGR01580 458817000534 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 458817000535 [4Fe-4S] binding site [ion binding]; other site 458817000536 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 458817000537 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 458817000538 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 458817000539 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 458817000540 molybdopterin cofactor binding site; other site 458817000541 nitrate reductase, beta subunit; Region: narH; TIGR01660 458817000542 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 458817000543 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 458817000544 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03002 458817000545 PPIC-type PPIASE domain; Region: Rotamase; cl08278 458817000546 HPP family; Region: HPP; pfam04982 458817000547 Protein phosphatase 2C; Region: PP2C; pfam00481 458817000548 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 458817000549 active site 458817000550 Protein kinase domain; Region: Pkinase; pfam00069 458817000551 Catalytic domain of Protein Kinases; Region: PKc; cd00180 458817000552 active site 458817000553 ATP binding site [chemical binding]; other site 458817000554 substrate binding site [chemical binding]; other site 458817000555 activation loop (A-loop); other site 458817000556 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 458817000557 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 458817000558 putative substrate translocation pore; other site 458817000559 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 458817000560 Predicted permeases [General function prediction only]; Region: RarD; COG2962 458817000561 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 458817000562 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 458817000563 active site 458817000564 FMN binding site [chemical binding]; other site 458817000565 substrate binding site [chemical binding]; other site 458817000566 putative catalytic residue [active] 458817000567 BCCT family transporter; Region: BCCT; cl00569 458817000568 glutathione reductase; Validated; Region: PRK06116 458817000569 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817000570 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458817000571 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 458817000572 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 458817000573 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 458817000574 active site 458817000575 Zn binding site [ion binding]; other site 458817000576 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 458817000577 active site 458817000578 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 458817000579 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 458817000580 C-terminal domain interface [polypeptide binding]; other site 458817000581 GSH binding site (G-site) [chemical binding]; other site 458817000582 dimer interface [polypeptide binding]; other site 458817000583 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 458817000584 N-terminal domain interface [polypeptide binding]; other site 458817000585 dimer interface [polypeptide binding]; other site 458817000586 substrate binding pocket (H-site) [chemical binding]; other site 458817000587 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 458817000588 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 458817000589 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817000590 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817000591 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 458817000592 Protein export membrane protein; Region: SecD_SecF; cl14618 458817000593 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 458817000594 active site 458817000595 metal binding site [ion binding]; metal-binding site 458817000596 homotetramer interface [polypeptide binding]; other site 458817000597 Predicted permease; Region: DUF318; pfam03773 458817000598 Uncharacterized low-complexity protein [Function unknown]; Region: COG3767 458817000599 Predicted permease; Region: DUF318; pfam03773 458817000600 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 458817000601 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 458817000602 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 458817000603 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 458817000604 LemA family; Region: LemA; cl00742 458817000605 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 458817000606 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 458817000607 N-acetyl-D-glucosamine binding site [chemical binding]; other site 458817000608 catalytic residue [active] 458817000609 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 458817000610 MatE; Region: MatE; cl10513 458817000611 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817000612 Helix-turn-helix domains; Region: HTH; cl00088 458817000613 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 458817000614 dimerization interface [polypeptide binding]; other site 458817000615 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 458817000616 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 458817000617 DNA binding site [nucleotide binding] 458817000618 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 458817000619 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817000620 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 458817000621 MgtE intracellular N domain; Region: MgtE_N; cl15244 458817000622 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 458817000623 Divalent cation transporter; Region: MgtE; cl00786 458817000624 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 458817000625 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 458817000626 putative substrate translocation pore; other site 458817000627 ferredoxin-like protein FixX; Provisional; Region: PRK15449 458817000628 oxidoreductase; Provisional; Region: PRK10015 458817000629 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817000630 putative electron transfer flavoprotein FixB; Provisional; Region: fixB; PRK03363 458817000631 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 458817000632 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 458817000633 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 458817000634 Ligand binding site [chemical binding]; other site 458817000635 Electron transfer flavoprotein domain; Region: ETF; pfam01012 458817000636 BCCT family transporter; Region: BCCT; cl00569 458817000637 crotonobetainyl-CoA dehydrogenase; Validated; Region: PRK03354 458817000638 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 458817000639 active site 458817000640 crotonobetainyl-CoA:carnitine CoA-transferase; Provisional; Region: PRK03525 458817000641 CoA-transferase family III; Region: CoA_transf_3; pfam02515 458817000642 putative crotonobetaine/carnitine-CoA ligase; Validated; Region: caiC; PRK08008 458817000643 AMP-binding enzyme; Region: AMP-binding; cl15778 458817000644 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 458817000645 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 458817000646 substrate binding site [chemical binding]; other site 458817000647 oxyanion hole (OAH) forming residues; other site 458817000648 trimer interface [polypeptide binding]; other site 458817000649 enoyl-CoA hydratase; Region: PLN02864 458817000650 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 458817000651 active site 2 [active] 458817000652 active site 1 [active] 458817000653 carnitine operon protein CaiE; Provisional; Region: PRK13627 458817000654 paaY-like: This group is composed by uncharacterized proteins with similarity to the protein product of the E. coli paaY gene, which is part of the paa gene cluster responsible for phenylacetic acid degradation. Proteins in this group are expected to...; Region: LbH_paaY_like; cd04745 458817000655 putative trimer interface [polypeptide binding]; other site 458817000656 putative metal binding site [ion binding]; other site 458817000657 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458817000658 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 458817000659 substrate binding pocket [chemical binding]; other site 458817000660 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458817000661 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 458817000662 Helix-turn-helix domains; Region: HTH; cl00088 458817000663 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 458817000664 dimerization interface [polypeptide binding]; other site 458817000665 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 458817000666 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 458817000667 catalytic residues [active] 458817000668 hinge region; other site 458817000669 alpha helical domain; other site 458817000670 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 458817000671 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 458817000672 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 458817000673 Helix-turn-helix domains; Region: HTH; cl00088 458817000674 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 458817000675 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 458817000676 catalytic residues [active] 458817000677 hinge region; other site 458817000678 alpha helical domain; other site 458817000679 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 458817000680 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 458817000681 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817000682 Helix-turn-helix domains; Region: HTH; cl00088 458817000683 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 458817000684 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 458817000685 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 458817000686 dimerization interface [polypeptide binding]; other site 458817000687 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 458817000688 dimer interface [polypeptide binding]; other site 458817000689 phosphorylation site [posttranslational modification] 458817000690 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 458817000691 ATP binding site [chemical binding]; other site 458817000692 Mg2+ binding site [ion binding]; other site 458817000693 G-X-G motif; other site 458817000694 osmolarity response regulator; Provisional; Region: ompR; PRK09468 458817000695 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817000696 active site 458817000697 phosphorylation site [posttranslational modification] 458817000698 intermolecular recognition site; other site 458817000699 dimerization interface [polypeptide binding]; other site 458817000700 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 458817000701 DNA binding site [nucleotide binding] 458817000702 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 458817000703 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 458817000704 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 458817000705 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 458817000706 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 458817000707 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 458817000708 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 458817000709 RNA binding site [nucleotide binding]; other site 458817000710 putative pimeloyl-BioC--CoA transferase BioH; Region: bioH; TIGR01738 458817000711 DNA utilization protein GntX; Provisional; Region: PRK11595 458817000712 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 458817000713 putative active site [active] 458817000714 Zn binding site [ion binding]; other site 458817000715 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 458817000716 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 458817000717 NifU-like domain; Region: NifU; cl00484 458817000718 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 458817000719 MatE; Region: MatE; cl10513 458817000720 MatE; Region: MatE; cl10513 458817000721 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 458817000722 putative active site [active] 458817000723 putative metal binding site [ion binding]; other site 458817000724 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 458817000725 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 458817000726 Cu(I) binding site [ion binding]; other site 458817000727 UbiA prenyltransferase family; Region: UbiA; cl00337 458817000728 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 458817000729 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 458817000730 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 458817000731 Subunit III/VIIa interface [polypeptide binding]; other site 458817000732 Phospholipid binding site [chemical binding]; other site 458817000733 Subunit I/III interface [polypeptide binding]; other site 458817000734 Subunit III/VIb interface [polypeptide binding]; other site 458817000735 Subunit III/VIa interface; other site 458817000736 Subunit III/Vb interface [polypeptide binding]; other site 458817000737 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 458817000738 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 458817000739 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 458817000740 Subunit I/III interface [polypeptide binding]; other site 458817000741 D-pathway; other site 458817000742 Subunit I/VIIc interface [polypeptide binding]; other site 458817000743 Subunit I/IV interface [polypeptide binding]; other site 458817000744 Subunit I/II interface [polypeptide binding]; other site 458817000745 Low-spin heme (heme a) binding site [chemical binding]; other site 458817000746 Subunit I/VIIa interface [polypeptide binding]; other site 458817000747 Subunit I/VIa interface [polypeptide binding]; other site 458817000748 Dimer interface; other site 458817000749 Putative water exit pathway; other site 458817000750 Binuclear center (heme a3/CuB) [ion binding]; other site 458817000751 K-pathway; other site 458817000752 Subunit I/Vb interface [polypeptide binding]; other site 458817000753 Putative proton exit pathway; other site 458817000754 Subunit I/VIb interface; other site 458817000755 Subunit I/VIc interface [polypeptide binding]; other site 458817000756 Electron transfer pathway; other site 458817000757 Subunit I/VIIIb interface [polypeptide binding]; other site 458817000758 Subunit I/VIIb interface [polypeptide binding]; other site 458817000759 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 458817000760 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 458817000761 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 458817000762 Cytochrome c; Region: Cytochrom_C; cl11414 458817000763 Cytochrome c; Region: Cytochrom_C; cl11414 458817000764 Cell division inhibitor SulA; Region: SulA; cl01880 458817000765 LexA repressor; Validated; Region: PRK00215 458817000766 Helix-turn-helix domains; Region: HTH; cl00088 458817000767 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 458817000768 Catalytic site [active] 458817000769 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 458817000770 FGGY-family pentulose kinase; Region: 5C_CHO_kinase; TIGR01315 458817000771 N- and C-terminal domain interface [polypeptide binding]; other site 458817000772 putative active site [active] 458817000773 putative MgATP binding site [chemical binding]; other site 458817000774 catalytic site [active] 458817000775 metal binding site [ion binding]; metal-binding site 458817000776 carbohydrate binding site [chemical binding]; other site 458817000777 putative homodimer interface [polypeptide binding]; other site 458817000778 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 458817000779 TM-ABC transporter signature motif; other site 458817000780 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 458817000781 TM-ABC transporter signature motif; other site 458817000782 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 458817000783 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 458817000784 Walker A/P-loop; other site 458817000785 ATP binding site [chemical binding]; other site 458817000786 Q-loop/lid; other site 458817000787 ABC transporter signature motif; other site 458817000788 Walker B; other site 458817000789 D-loop; other site 458817000790 H-loop/switch region; other site 458817000791 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 458817000792 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 458817000793 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 458817000794 ligand binding site [chemical binding]; other site 458817000795 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 458817000796 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 458817000797 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 458817000798 FtsX-like permease family; Region: FtsX; cl15850 458817000799 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 458817000800 FtsX-like permease family; Region: FtsX; cl15850 458817000801 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 458817000802 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 458817000803 Walker A/P-loop; other site 458817000804 ATP binding site [chemical binding]; other site 458817000805 Q-loop/lid; other site 458817000806 ABC transporter signature motif; other site 458817000807 Walker B; other site 458817000808 D-loop; other site 458817000809 H-loop/switch region; other site 458817000810 Glycerol-3-phosphate O-acyltransferase [Lipid metabolism]; Region: PlsB; COG2937 458817000811 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 458817000812 putative acyl-acceptor binding pocket; other site 458817000813 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 458817000814 aromatic amino acid transport protein; Region: araaP; TIGR00837 458817000815 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 458817000816 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 458817000817 Helix-turn-helix domain; Region: HTH_18; pfam12833 458817000818 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 458817000819 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817000820 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817000821 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817000822 metal binding site [ion binding]; metal-binding site 458817000823 active site 458817000824 I-site; other site 458817000825 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 458817000826 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 458817000827 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 458817000828 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 458817000829 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 458817000830 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 458817000831 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817000832 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817000833 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 458817000834 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 458817000835 Protein of unknown function (DUF1145); Region: DUF1145; cl11481 458817000836 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817000837 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 458817000838 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 458817000839 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 458817000840 P loop; other site 458817000841 GTP binding site [chemical binding]; other site 458817000842 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 458817000843 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817000844 Walker A/P-loop; other site 458817000845 ATP binding site [chemical binding]; other site 458817000846 Q-loop/lid; other site 458817000847 ABC transporter signature motif; other site 458817000848 Walker B; other site 458817000849 D-loop; other site 458817000850 H-loop/switch region; other site 458817000851 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 458817000852 FtsX-like permease family; Region: FtsX; cl15850 458817000853 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 458817000854 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 458817000855 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 458817000856 DNA binding residues [nucleotide binding] 458817000857 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 458817000858 Peptidase S8 family domain in Protein convertases; Region: Peptidases_S8_Protein_convertases_Kexins_Furin-lik; cd04059 458817000859 calcium binding site 1 [ion binding]; other site 458817000860 active site 458817000861 catalytic triad [active] 458817000862 calcium binding site 2 [ion binding]; other site 458817000863 calcium binding site 3 [ion binding]; other site 458817000864 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 458817000865 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 458817000866 AMP-binding enzyme; Region: AMP-binding; cl15778 458817000867 O-succinylbenzoate synthase; Provisional; Region: PRK05105 458817000868 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 458817000869 active site 458817000870 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 458817000871 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 458817000872 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 458817000873 dimer interface [polypeptide binding]; other site 458817000874 tetramer interface [polypeptide binding]; other site 458817000875 PYR/PP interface [polypeptide binding]; other site 458817000876 TPP binding site [chemical binding]; other site 458817000877 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 458817000878 TPP-binding site; other site 458817000879 Helix-turn-helix domains; Region: HTH; cl00088 458817000880 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 458817000881 dimerization interface [polypeptide binding]; other site 458817000882 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817000883 Helix-turn-helix domains; Region: HTH; cl00088 458817000884 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 458817000885 dimerization interface [polypeptide binding]; other site 458817000886 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 458817000887 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 458817000888 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 458817000889 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 458817000890 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 458817000891 Polysulphide reductase, NrfD; Region: NrfD; cl01295 458817000892 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 458817000893 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 458817000894 putative metal binding site [ion binding]; other site 458817000895 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 458817000896 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 458817000897 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 458817000898 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 458817000899 Sel1 repeat; Region: Sel1; cl02723 458817000900 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 458817000901 Helix-turn-helix domains; Region: HTH; cl00088 458817000902 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 458817000903 substrate binding pocket [chemical binding]; other site 458817000904 dimerization interface [polypeptide binding]; other site 458817000905 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 458817000906 multidrug efflux system protein MdtL; Provisional; Region: PRK10473 458817000907 putative substrate translocation pore; other site 458817000908 DTW domain; Region: DTW; cl01221 458817000909 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 458817000910 PAS domain S-box; Region: sensory_box; TIGR00229 458817000911 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817000912 metal binding site [ion binding]; metal-binding site 458817000913 active site 458817000914 I-site; other site 458817000915 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 458817000916 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817000917 Flagellar protein YcgR; Region: YcgR_2; pfam12945 458817000918 PilZ domain; Region: PilZ; cl01260 458817000919 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 458817000920 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 458817000921 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 458817000922 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 458817000923 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 458817000924 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 458817000925 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817000926 Helix-turn-helix domains; Region: HTH; cl00088 458817000927 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 458817000928 substrate binding pocket [chemical binding]; other site 458817000929 dimerization interface [polypeptide binding]; other site 458817000930 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 458817000931 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 458817000932 4Fe-4S binding domain; Region: Fer4; cl02805 458817000933 4Fe-4S binding domain; Region: Fer4; cl02805 458817000934 hypothetical protein; Provisional; Region: PRK10977 458817000935 Glycine radical; Region: Gly_radical; cl12026 458817000936 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 458817000937 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 458817000938 NAD(P) binding site [chemical binding]; other site 458817000939 catalytic residues [active] 458817000940 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 458817000941 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 458817000942 NADP binding site [chemical binding]; other site 458817000943 dimer interface [polypeptide binding]; other site 458817000944 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817000945 Helix-turn-helix domains; Region: HTH; cl00088 458817000946 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 458817000947 substrate binding pocket [chemical binding]; other site 458817000948 dimerization interface [polypeptide binding]; other site 458817000949 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817000950 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 458817000951 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 458817000952 heme-binding residues [chemical binding]; other site 458817000953 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817000954 Helix-turn-helix domains; Region: HTH; cl00088 458817000955 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 458817000956 dimerization interface [polypeptide binding]; other site 458817000957 Helix-turn-helix domains; Region: HTH; cl00088 458817000958 two-component sensor protein; Provisional; Region: cpxA; PRK09470 458817000959 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 458817000960 dimerization interface [polypeptide binding]; other site 458817000961 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 458817000962 dimer interface [polypeptide binding]; other site 458817000963 phosphorylation site [posttranslational modification] 458817000964 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 458817000965 ATP binding site [chemical binding]; other site 458817000966 Mg2+ binding site [ion binding]; other site 458817000967 G-X-G motif; other site 458817000968 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 458817000969 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817000970 active site 458817000971 phosphorylation site [posttranslational modification] 458817000972 intermolecular recognition site; other site 458817000973 dimerization interface [polypeptide binding]; other site 458817000974 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 458817000975 DNA binding site [nucleotide binding] 458817000976 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 458817000977 dimer interface [polypeptide binding]; other site 458817000978 Cation efflux family; Region: Cation_efflux; cl00316 458817000979 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 458817000980 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817000981 active site 458817000982 phosphorylation site [posttranslational modification] 458817000983 intermolecular recognition site; other site 458817000984 dimerization interface [polypeptide binding]; other site 458817000985 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 458817000986 Walker A motif; other site 458817000987 ATP binding site [chemical binding]; other site 458817000988 Walker B motif; other site 458817000989 arginine finger; other site 458817000990 Helix-turn-helix domains; Region: HTH; cl00088 458817000991 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 458817000992 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 458817000993 dimer interface [polypeptide binding]; other site 458817000994 phosphorylation site [posttranslational modification] 458817000995 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 458817000996 ATP binding site [chemical binding]; other site 458817000997 Mg2+ binding site [ion binding]; other site 458817000998 G-X-G motif; other site 458817000999 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 458817001000 Uncharacterized protein conserved in bacteria, putative lipoprotein [Function unknown]; Region: LprI; COG4461 458817001001 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 458817001002 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 458817001003 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 458817001004 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 458817001005 potential catalytic triad [active] 458817001006 conserved cys residue [active] 458817001007 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 458817001008 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 458817001009 dimer interface [polypeptide binding]; other site 458817001010 active site 458817001011 metal binding site [ion binding]; metal-binding site 458817001012 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 458817001013 Helix-turn-helix domains; Region: HTH; cl00088 458817001014 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 458817001015 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 458817001016 non-specific DNA binding site [nucleotide binding]; other site 458817001017 salt bridge; other site 458817001018 sequence-specific DNA binding site [nucleotide binding]; other site 458817001019 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 458817001020 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 458817001021 glutamine synthetase; Provisional; Region: glnA; PRK09469 458817001022 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 458817001023 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 458817001024 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 458817001025 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 458817001026 G1 box; other site 458817001027 putative GEF interaction site [polypeptide binding]; other site 458817001028 GTP/Mg2+ binding site [chemical binding]; other site 458817001029 Switch I region; other site 458817001030 G2 box; other site 458817001031 G3 box; other site 458817001032 Switch II region; other site 458817001033 G4 box; other site 458817001034 G5 box; other site 458817001035 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 458817001036 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 458817001037 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 458817001038 pyridoxamine kinase; Validated; Region: PRK05756 458817001039 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 458817001040 dimer interface [polypeptide binding]; other site 458817001041 pyridoxal binding site [chemical binding]; other site 458817001042 ATP binding site [chemical binding]; other site 458817001043 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 458817001044 4Fe-4S binding domain; Region: Fer4_5; pfam12801 458817001045 4Fe-4S binding domain; Region: Fer4_5; pfam12801 458817001046 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 458817001047 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 458817001048 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 458817001049 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 458817001050 putative active site [active] 458817001051 dimerization interface [polypeptide binding]; other site 458817001052 putative tRNAtyr binding site [nucleotide binding]; other site 458817001053 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 458817001054 active site residue [active] 458817001055 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 458817001056 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 458817001057 dimer interface [polypeptide binding]; other site 458817001058 active site 458817001059 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 458817001060 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817001061 NAD(P) binding site [chemical binding]; other site 458817001062 active site 458817001063 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 458817001064 putative active site 1 [active] 458817001065 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 458817001066 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 458817001067 dimer interface [polypeptide binding]; other site 458817001068 active site 458817001069 Protein of unknown function (DUF3261); Region: DUF3261; pfam11659 458817001070 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 458817001071 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817001072 Predicted exporter [General function prediction only]; Region: COG4258 458817001073 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 458817001074 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 458817001075 active site 458817001076 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 458817001077 active sites [active] 458817001078 tetramer interface [polypeptide binding]; other site 458817001079 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 458817001080 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 458817001081 Ligand binding site; other site 458817001082 Putative Catalytic site; other site 458817001083 DXD motif; other site 458817001084 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 458817001085 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 458817001086 putative acyl-acceptor binding pocket; other site 458817001087 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 458817001088 active site 2 [active] 458817001089 dimer interface [polypeptide binding]; other site 458817001090 active site 1 [active] 458817001091 AMP-binding enzyme; Region: AMP-binding; cl15778 458817001092 Predicted membrane protein [Function unknown]; Region: COG4648 458817001093 Phosphopantetheine attachment site; Region: PP-binding; cl09936 458817001094 Phosphopantetheine attachment site; Region: PP-binding; cl09936 458817001095 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 458817001096 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 458817001097 putative acyl-acceptor binding pocket; other site 458817001098 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 458817001099 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 458817001100 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 458817001101 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 458817001102 generic binding surface II; other site 458817001103 ssDNA binding site; other site 458817001104 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 458817001105 ATP binding site [chemical binding]; other site 458817001106 putative Mg++ binding site [ion binding]; other site 458817001107 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 458817001108 nucleotide binding region [chemical binding]; other site 458817001109 ATP-binding site [chemical binding]; other site 458817001110 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 458817001111 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 458817001112 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 458817001113 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 458817001114 AMP-binding enzyme; Region: AMP-binding; cl15778 458817001115 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 458817001116 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 458817001117 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 458817001118 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 458817001119 homotrimer interaction site [polypeptide binding]; other site 458817001120 putative active site [active] 458817001121 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 458817001122 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 458817001123 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 458817001124 synthetase active site [active] 458817001125 NTP binding site [chemical binding]; other site 458817001126 metal binding site [ion binding]; metal-binding site 458817001127 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 458817001128 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 458817001129 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 458817001130 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 458817001131 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 458817001132 catalytic site [active] 458817001133 G-X2-G-X-G-K; other site 458817001134 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 458817001135 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: Arch_glmU; TIGR03992 458817001136 active site 458817001137 Phosphotransferase enzyme family; Region: APH; pfam01636 458817001138 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 458817001139 substrate binding site [chemical binding]; other site 458817001140 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 458817001141 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 458817001142 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 458817001143 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 458817001144 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 458817001145 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 458817001146 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 458817001147 active site 458817001148 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 458817001149 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 458817001150 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458817001151 catalytic residue [active] 458817001152 Predicted permease; Region: DUF318; pfam03773 458817001153 Uncharacterized low-complexity protein [Function unknown]; Region: COG3767 458817001154 ERCC4 domain; Region: ERCC4; cl10594 458817001155 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 458817001156 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 458817001157 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 458817001158 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 458817001159 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 458817001160 molybdopterin cofactor binding site; other site 458817001161 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 458817001162 molybdopterin cofactor binding site; other site 458817001163 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl04869 458817001164 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 458817001165 4Fe-4S binding domain; Region: Fer4; cl02805 458817001166 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 458817001167 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817001168 active site 458817001169 phosphorylation site [posttranslational modification] 458817001170 intermolecular recognition site; other site 458817001171 dimerization interface [polypeptide binding]; other site 458817001172 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 458817001173 DNA binding residues [nucleotide binding] 458817001174 dimerization interface [polypeptide binding]; other site 458817001175 NMT1-like family; Region: NMT1_2; cl15260 458817001176 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 458817001177 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 458817001178 dimer interface [polypeptide binding]; other site 458817001179 phosphorylation site [posttranslational modification] 458817001180 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 458817001181 ATP binding site [chemical binding]; other site 458817001182 Mg2+ binding site [ion binding]; other site 458817001183 G-X-G motif; other site 458817001184 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 458817001185 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 458817001186 active site pocket [active] 458817001187 BCCT family transporter; Region: BCCT; cl00569 458817001188 galactarate dehydratase; Region: galactar-dH20; TIGR03248 458817001189 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 458817001190 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 458817001191 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 458817001192 Helix-turn-helix domains; Region: HTH; cl00088 458817001193 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 458817001194 dimerization interface [polypeptide binding]; other site 458817001195 Transcriptional regulators [Transcription]; Region: GntR; COG1802 458817001196 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458817001197 DNA-binding site [nucleotide binding]; DNA binding site 458817001198 FCD domain; Region: FCD; cl11656 458817001199 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 458817001200 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 458817001201 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 458817001202 Nucleoside recognition; Region: Gate; cl00486 458817001203 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 458817001204 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 458817001205 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b1; cd09203 458817001206 PLD-like domain; Region: PLDc_2; pfam13091 458817001207 putative homodimer interface [polypeptide binding]; other site 458817001208 putative active site [active] 458817001209 catalytic site [active] 458817001210 DEAD-like helicases superfamily; Region: DEXDc; smart00487 458817001211 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 458817001212 ATP binding site [chemical binding]; other site 458817001213 putative Mg++ binding site [ion binding]; other site 458817001214 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 458817001215 nucleotide binding region [chemical binding]; other site 458817001216 ATP-binding site [chemical binding]; other site 458817001217 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 458817001218 HipA N-terminal domain; Region: Couple_hipA; cl11853 458817001219 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 458817001220 HipA-like N-terminal domain; Region: HipA_N; pfam07805 458817001221 HipA-like C-terminal domain; Region: HipA_C; pfam07804 458817001222 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 458817001223 non-specific DNA binding site [nucleotide binding]; other site 458817001224 salt bridge; other site 458817001225 sequence-specific DNA binding site [nucleotide binding]; other site 458817001226 hypothetical protein; Provisional; Region: PRK11820 458817001227 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 458817001228 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 458817001229 ribonuclease PH; Reviewed; Region: rph; PRK00173 458817001230 Ribonuclease PH; Region: RNase_PH_bact; cd11362 458817001231 hexamer interface [polypeptide binding]; other site 458817001232 active site 458817001233 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 458817001234 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 458817001235 active site 458817001236 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 458817001237 GTP cyclohydrolase I; Provisional; Region: PLN03044 458817001238 active site 458817001239 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 458817001240 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458817001241 division inhibitor protein; Provisional; Region: slmA; PRK09480 458817001242 Helix-turn-helix domains; Region: HTH; cl00088 458817001243 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 458817001244 trimer interface [polypeptide binding]; other site 458817001245 active site 458817001246 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 458817001247 Flavoprotein; Region: Flavoprotein; cl08021 458817001248 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 458817001249 hypothetical protein; Reviewed; Region: PRK00024 458817001250 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 458817001251 MPN+ (JAMM) motif; other site 458817001252 Zinc-binding site [ion binding]; other site 458817001253 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 458817001254 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 458817001255 N-acetylglutamate synthase; Validated; Region: PRK05279 458817001256 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 458817001257 putative feedback inhibition sensing region; other site 458817001258 putative nucleotide binding site [chemical binding]; other site 458817001259 putative substrate binding site [chemical binding]; other site 458817001260 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 458817001261 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 458817001262 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 458817001263 CoenzymeA binding site [chemical binding]; other site 458817001264 subunit interaction site [polypeptide binding]; other site 458817001265 PHB binding site; other site 458817001266 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 458817001267 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 458817001268 ATP binding site [chemical binding]; other site 458817001269 putative Mg++ binding site [ion binding]; other site 458817001270 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 458817001271 nucleotide binding region [chemical binding]; other site 458817001272 ATP-binding site [chemical binding]; other site 458817001273 RQC domain; Region: RQC; cl09632 458817001274 HRDC domain; Region: HRDC; cl02578 458817001275 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817001276 metal binding site [ion binding]; metal-binding site 458817001277 I-site; other site 458817001278 2-isopropylmalate synthase; Validated; Region: PRK00915 458817001279 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 458817001280 active site 458817001281 catalytic residues [active] 458817001282 metal binding site [ion binding]; metal-binding site 458817001283 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 458817001284 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 458817001285 tartrate dehydrogenase; Provisional; Region: PRK08194 458817001286 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 458817001287 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 458817001288 substrate binding site [chemical binding]; other site 458817001289 ligand binding site [chemical binding]; other site 458817001290 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 458817001291 substrate binding site [chemical binding]; other site 458817001292 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 458817001293 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 458817001294 glycerol kinase; Provisional; Region: glpK; PRK00047 458817001295 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 458817001296 N- and C-terminal domain interface [polypeptide binding]; other site 458817001297 active site 458817001298 MgATP binding site [chemical binding]; other site 458817001299 catalytic site [active] 458817001300 metal binding site [ion binding]; metal-binding site 458817001301 glycerol binding site [chemical binding]; other site 458817001302 homotetramer interface [polypeptide binding]; other site 458817001303 homodimer interface [polypeptide binding]; other site 458817001304 FBP binding site [chemical binding]; other site 458817001305 protein IIAGlc interface [polypeptide binding]; other site 458817001306 cell division protein MraZ; Reviewed; Region: PRK00326 458817001307 MraZ protein; Region: MraZ; pfam02381 458817001308 MraZ protein; Region: MraZ; pfam02381 458817001309 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 458817001310 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817001311 Septum formation initiator; Region: DivIC; cl11433 458817001312 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 458817001313 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 458817001314 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 458817001315 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 458817001316 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 458817001317 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 458817001318 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 458817001319 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 458817001320 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 458817001321 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 458817001322 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 458817001323 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 458817001324 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 458817001325 Mg++ binding site [ion binding]; other site 458817001326 putative catalytic motif [active] 458817001327 putative substrate binding site [chemical binding]; other site 458817001328 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 458817001329 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 458817001330 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 458817001331 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 458817001332 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 458817001333 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 458817001334 active site 458817001335 homodimer interface [polypeptide binding]; other site 458817001336 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 458817001337 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 458817001338 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 458817001339 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 458817001340 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 458817001341 Cell division protein FtsQ; Region: FtsQ; pfam03799 458817001342 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 458817001343 Cell division protein FtsA; Region: FtsA; cl11496 458817001344 Cell division protein FtsA; Region: FtsA; cl11496 458817001345 cell division protein FtsZ; Validated; Region: PRK09330 458817001346 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 458817001347 nucleotide binding site [chemical binding]; other site 458817001348 SulA interaction site; other site 458817001349 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 458817001350 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 458817001351 Protein of unknown function (DUF721); Region: DUF721; cl02324 458817001352 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 458817001353 Peptidase family M23; Region: Peptidase_M23; pfam01551 458817001354 preprotein translocase subunit SecA; Reviewed; Region: PRK13107 458817001355 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 458817001356 SEC-C motif; Region: SEC-C; pfam02810 458817001357 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 458817001358 active site 458817001359 8-oxo-dGMP binding site [chemical binding]; other site 458817001360 nudix motif; other site 458817001361 metal binding site [ion binding]; metal-binding site 458817001362 Domain of unknown function (DUF329); Region: DUF329; cl01144 458817001363 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 458817001364 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 458817001365 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 458817001366 CoA-binding site [chemical binding]; other site 458817001367 ATP-binding [chemical binding]; other site 458817001368 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 458817001369 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 458817001370 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 458817001371 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 458817001372 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 458817001373 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 458817001374 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 458817001375 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 458817001376 Walker A motif; other site 458817001377 ATP binding site [chemical binding]; other site 458817001378 Walker B motif; other site 458817001379 Pilin (bacterial filament); Region: Pilin; pfam00114 458817001380 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 458817001381 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 458817001382 dimerization interface [polypeptide binding]; other site 458817001383 active site 458817001384 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 458817001385 amidase catalytic site [active] 458817001386 Zn binding residues [ion binding]; other site 458817001387 substrate binding site [chemical binding]; other site 458817001388 CobD/Cbib protein; Region: CobD_Cbib; cl00561 458817001389 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 458817001390 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458817001391 DNA-binding site [nucleotide binding]; DNA binding site 458817001392 FCD domain; Region: FCD; cl11656 458817001393 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 458817001394 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 458817001395 dimer interface [polypeptide binding]; other site 458817001396 TPP-binding site [chemical binding]; other site 458817001397 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 458817001398 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 458817001399 E3 interaction surface; other site 458817001400 lipoyl attachment site [posttranslational modification]; other site 458817001401 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 458817001402 E3 interaction surface; other site 458817001403 lipoyl attachment site [posttranslational modification]; other site 458817001404 e3 binding domain; Region: E3_binding; pfam02817 458817001405 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 458817001406 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 458817001407 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817001408 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458817001409 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 458817001410 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 458817001411 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 458817001412 sensory histidine kinase AtoS; Provisional; Region: PRK11360 458817001413 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817001414 metal binding site [ion binding]; metal-binding site 458817001415 active site 458817001416 I-site; other site 458817001417 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 458817001418 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 458817001419 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 458817001420 active site 458817001421 nucleophile elbow; other site 458817001422 Surface antigen; Region: Bac_surface_Ag; cl03097 458817001423 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 458817001424 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 458817001425 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 458817001426 motif II; other site 458817001427 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 458817001428 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 458817001429 substrate binding site [chemical binding]; other site 458817001430 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 458817001431 substrate binding site [chemical binding]; other site 458817001432 ligand binding site [chemical binding]; other site 458817001433 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; cl11478 458817001434 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 458817001435 substrate binding site [chemical binding]; other site 458817001436 active site 458817001437 sensory histidine kinase AtoS; Provisional; Region: PRK11360 458817001438 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 458817001439 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817001440 metal binding site [ion binding]; metal-binding site 458817001441 active site 458817001442 I-site; other site 458817001443 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 458817001444 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 458817001445 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 458817001446 ATP-grasp domain; Region: ATP-grasp_4; cl03087 458817001447 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 458817001448 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 458817001449 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 458817001450 purine monophosphate binding site [chemical binding]; other site 458817001451 dimer interface [polypeptide binding]; other site 458817001452 putative catalytic residues [active] 458817001453 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 458817001454 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 458817001455 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 458817001456 DNA binding residues [nucleotide binding] 458817001457 dimer interface [polypeptide binding]; other site 458817001458 metal binding site [ion binding]; metal-binding site 458817001459 Predicted permease; Region: DUF318; pfam03773 458817001460 Predicted permease; Region: DUF318; pfam03773 458817001461 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 458817001462 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 458817001463 catalytic residues [active] 458817001464 hinge region; other site 458817001465 alpha helical domain; other site 458817001466 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 458817001467 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 458817001468 molybdopterin cofactor binding site; other site 458817001469 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 458817001470 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 458817001471 molybdopterin cofactor binding site; other site 458817001472 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 458817001473 4Fe-4S binding domain; Region: Fer4; cl02805 458817001474 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 458817001475 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 458817001476 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 458817001477 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 458817001478 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 458817001479 selenocysteine synthase; Provisional; Region: PRK04311 458817001480 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 458817001481 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 458817001482 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458817001483 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 458817001484 catalytic residue [active] 458817001485 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 458817001486 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 458817001487 G1 box; other site 458817001488 putative GEF interaction site [polypeptide binding]; other site 458817001489 GTP/Mg2+ binding site [chemical binding]; other site 458817001490 Switch I region; other site 458817001491 G2 box; other site 458817001492 G3 box; other site 458817001493 Switch II region; other site 458817001494 G4 box; other site 458817001495 G5 box; other site 458817001496 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 458817001497 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 458817001498 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 458817001499 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 458817001500 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 458817001501 putative inner membrane protein; Provisional; Region: PRK11099 458817001502 Sulphur transport; Region: Sulf_transp; cl01018 458817001503 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 458817001504 CPxP motif; other site 458817001505 Transcriptional regulator; Region: Transcrip_reg; cl00361 458817001506 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 458817001507 LysR family transcriptional regulator; Provisional; Region: PRK14997 458817001508 Helix-turn-helix domains; Region: HTH; cl00088 458817001509 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 458817001510 putative effector binding pocket; other site 458817001511 dimerization interface [polypeptide binding]; other site 458817001512 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 458817001513 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817001514 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817001515 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 458817001516 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 458817001517 putative substrate translocation pore; other site 458817001518 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 458817001519 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 458817001520 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 458817001521 DNA binding site [nucleotide binding] 458817001522 Int/Topo IB signature motif; other site 458817001523 active site 458817001524 catalytic residues [active] 458817001525 Putative phage integrase; Region: Phage_Integr_2; pfam13009 458817001526 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 458817001527 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 458817001528 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 458817001529 putative active site [active] 458817001530 putative NTP binding site [chemical binding]; other site 458817001531 putative nucleic acid binding site [nucleotide binding]; other site 458817001532 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 458817001533 putative active site [active] 458817001534 putative NTP binding site [chemical binding]; other site 458817001535 putative nucleic acid binding site [nucleotide binding]; other site 458817001536 Competence protein CoiA-like family; Region: CoiA; cl11541 458817001537 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 458817001538 non-specific DNA binding site [nucleotide binding]; other site 458817001539 salt bridge; other site 458817001540 sequence-specific DNA binding site [nucleotide binding]; other site 458817001541 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 458817001542 ATP binding site [chemical binding]; other site 458817001543 putative Mg++ binding site [ion binding]; other site 458817001544 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817001545 nucleotide binding region [chemical binding]; other site 458817001546 ATP-binding site [chemical binding]; other site 458817001547 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 458817001548 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817001549 Walker A/P-loop; other site 458817001550 ATP binding site [chemical binding]; other site 458817001551 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817001552 Walker B; other site 458817001553 D-loop; other site 458817001554 H-loop/switch region; other site 458817001555 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 458817001556 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 458817001557 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 458817001558 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817001559 Helix-turn-helix domains; Region: HTH; cl00088 458817001560 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 458817001561 substrate binding pocket [chemical binding]; other site 458817001562 dimerization interface [polypeptide binding]; other site 458817001563 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817001564 Helix-turn-helix domains; Region: HTH; cl00088 458817001565 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 458817001566 dimerization interface [polypeptide binding]; other site 458817001567 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 458817001568 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 458817001569 ligand binding site [chemical binding]; other site 458817001570 Conserved TM helix; Region: TM_helix; pfam05552 458817001571 Mechanosensitive ion channel; Region: MS_channel; pfam00924 458817001572 Protein of unknown function (DUF465); Region: DUF465; cl01070 458817001573 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 458817001574 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 458817001575 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 458817001576 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 458817001577 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 458817001578 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 458817001579 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 458817001580 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 458817001581 nudix motif; other site 458817001582 PAS domain S-box; Region: sensory_box; TIGR00229 458817001583 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 458817001584 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817001585 metal binding site [ion binding]; metal-binding site 458817001586 active site 458817001587 I-site; other site 458817001588 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 458817001589 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 458817001590 homotrimer interaction site [polypeptide binding]; other site 458817001591 putative active site [active] 458817001592 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 458817001593 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817001594 Family description; Region: UvrD_C_2; cl15862 458817001595 UbiA prenyltransferase family; Region: UbiA; cl00337 458817001596 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458817001597 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 458817001598 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 458817001599 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 458817001600 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 458817001601 catalytic residues [active] 458817001602 Cytochrome C biogenesis protein; Region: CcmH; cl01179 458817001603 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 458817001604 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 458817001605 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 458817001606 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 458817001607 active site residue [active] 458817001608 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 458817001609 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 458817001610 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 458817001611 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 458817001612 TPR motif; other site 458817001613 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 458817001614 binding surface 458817001615 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 458817001616 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 458817001617 Polysulphide reductase, NrfD; Region: NrfD; cl01295 458817001618 NosL; Region: NosL; cl01769 458817001619 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 458817001620 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 458817001621 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 458817001622 Walker A/P-loop; other site 458817001623 ATP binding site [chemical binding]; other site 458817001624 Q-loop/lid; other site 458817001625 ABC transporter signature motif; other site 458817001626 Walker B; other site 458817001627 D-loop; other site 458817001628 H-loop/switch region; other site 458817001629 ABC-2 type transporter; Region: ABC2_membrane; cl11417 458817001630 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 458817001631 DNA binding site [nucleotide binding] 458817001632 Domain of unknown function (DUF1851); Region: DUF1851; pfam08906 458817001633 LysE type translocator; Region: LysE; cl00565 458817001634 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 458817001635 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 458817001636 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 458817001637 active site residue [active] 458817001638 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 458817001639 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 458817001640 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 458817001641 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 458817001642 binding surface 458817001643 TPR motif; other site 458817001644 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 458817001645 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 458817001646 Polysulphide reductase, NrfD; Region: NrfD; cl01295 458817001647 NosL; Region: NosL; cl01769 458817001648 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 458817001649 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 458817001650 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 458817001651 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 458817001652 Walker A/P-loop; other site 458817001653 ATP binding site [chemical binding]; other site 458817001654 Q-loop/lid; other site 458817001655 ABC transporter signature motif; other site 458817001656 Walker B; other site 458817001657 D-loop; other site 458817001658 H-loop/switch region; other site 458817001659 ABC-2 type transporter; Region: ABC2_membrane; cl11417 458817001660 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 458817001661 DNA binding site [nucleotide binding] 458817001662 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 458817001663 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 458817001664 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 458817001665 Walker A/P-loop; other site 458817001666 ATP binding site [chemical binding]; other site 458817001667 Q-loop/lid; other site 458817001668 ABC transporter signature motif; other site 458817001669 Walker B; other site 458817001670 D-loop; other site 458817001671 H-loop/switch region; other site 458817001672 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 458817001673 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 458817001674 TM-ABC transporter signature motif; other site 458817001675 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 458817001676 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 458817001677 ligand binding site [chemical binding]; other site 458817001678 dimerization interface [polypeptide binding]; other site 458817001679 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 458817001680 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 458817001681 substrate binding site [chemical binding]; other site 458817001682 dimer interface [polypeptide binding]; other site 458817001683 ATP binding site [chemical binding]; other site 458817001684 transcriptional repressor RbsR; Provisional; Region: PRK10423 458817001685 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 458817001686 DNA binding site [nucleotide binding] 458817001687 domain linker motif; other site 458817001688 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 458817001689 dimerization interface [polypeptide binding]; other site 458817001690 ligand binding site [chemical binding]; other site 458817001691 FMN reductase; Validated; Region: fre; PRK08051 458817001692 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 458817001693 FAD binding pocket [chemical binding]; other site 458817001694 FAD binding motif [chemical binding]; other site 458817001695 phosphate binding motif [ion binding]; other site 458817001696 beta-alpha-beta structure motif; other site 458817001697 NAD binding pocket [chemical binding]; other site 458817001698 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 458817001699 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 458817001700 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 458817001701 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 458817001702 catalytic residues [active] 458817001703 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 458817001704 aromatic amino acid transport protein; Region: araaP; TIGR00837 458817001705 glutamate dehydrogenase; Provisional; Region: PRK09414 458817001706 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 458817001707 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 458817001708 NAD(P) binding site [chemical binding]; other site 458817001709 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 458817001710 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 458817001711 active site 458817001712 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 458817001713 catalytic residues [active] 458817001714 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817001715 NAD(P) binding site [chemical binding]; other site 458817001716 active site 458817001717 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 458817001718 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 458817001719 carboxyltransferase (CT) interaction site; other site 458817001720 biotinylation site [posttranslational modification]; other site 458817001721 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 458817001722 active site 458817001723 trimer interface [polypeptide binding]; other site 458817001724 dimer interface [polypeptide binding]; other site 458817001725 RF-1 domain; Region: RF-1; cl02875 458817001726 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 458817001727 Protein of unknown function (DUF3012); Region: DUF3012; pfam11216 458817001728 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 458817001729 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 458817001730 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817001731 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817001732 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817001733 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 458817001734 Penicillin-insensitive murein endopeptidase; Region: Peptidase_M74; cl01538 458817001735 Domain of unknown function (DUF386); Region: DUF386; cl01047 458817001736 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 458817001737 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 458817001738 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 458817001739 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 458817001740 active site 458817001741 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 458817001742 metal binding site [ion binding]; metal-binding site 458817001743 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 458817001744 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 458817001745 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 458817001746 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 458817001747 NADP binding site [chemical binding]; other site 458817001748 active site 458817001749 putative substrate binding site [chemical binding]; other site 458817001750 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 458817001751 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 458817001752 ATP binding site [chemical binding]; other site 458817001753 Mg2+ binding site [ion binding]; other site 458817001754 G-X-G motif; other site 458817001755 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 458817001756 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817001757 active site 458817001758 phosphorylation site [posttranslational modification] 458817001759 intermolecular recognition site; other site 458817001760 dimerization interface [polypeptide binding]; other site 458817001761 Helix-turn-helix domains; Region: HTH; cl00088 458817001762 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 458817001763 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 458817001764 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 458817001765 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 458817001766 Cytochrome c; Region: Cytochrom_C; cl11414 458817001767 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 458817001768 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817001769 NAD(P) binding site [chemical binding]; other site 458817001770 active site 458817001771 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817001772 Helix-turn-helix domains; Region: HTH; cl00088 458817001773 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 458817001774 putative effector binding pocket; other site 458817001775 dimerization interface [polypeptide binding]; other site 458817001776 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 458817001777 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox' sequence. MetJ...; Region: Met_repressor_MetJ; cd00490 458817001778 dimerization interface [polypeptide binding]; other site 458817001779 DNA binding site [nucleotide binding] 458817001780 corepressor binding sites; other site 458817001781 O-succinylhomoserine (thiol)-lyase; Region: O_succ_thio_ly; TIGR02080 458817001782 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 458817001783 homodimer interface [polypeptide binding]; other site 458817001784 substrate-cofactor binding pocket; other site 458817001785 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817001786 catalytic residue [active] 458817001787 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 458817001788 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 458817001789 nucleotide binding site [chemical binding]; other site 458817001790 substrate binding site [chemical binding]; other site 458817001791 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 458817001792 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 458817001793 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 458817001794 FAD binding site [chemical binding]; other site 458817001795 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 458817001796 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 458817001797 rarD protein; Region: rarD; TIGR00688 458817001798 EamA-like transporter family; Region: EamA; cl01037 458817001799 EamA-like transporter family; Region: EamA; cl01037 458817001800 helicase 45; Provisional; Region: PTZ00424 458817001801 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 458817001802 ATP binding site [chemical binding]; other site 458817001803 Mg++ binding site [ion binding]; other site 458817001804 motif III; other site 458817001805 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 458817001806 nucleotide binding region [chemical binding]; other site 458817001807 ATP-binding site [chemical binding]; other site 458817001808 DbpA RNA binding domain; Region: DbpA; pfam03880 458817001809 M28 Zn-Peptidases; Region: M28_like_2; cd05662 458817001810 metal binding site [ion binding]; metal-binding site 458817001811 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 458817001812 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 458817001813 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 458817001814 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 458817001815 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 458817001816 Major Facilitator Superfamily; Region: MFS_1; pfam07690 458817001817 putative substrate translocation pore; other site 458817001818 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 458817001819 dimer interface [polypeptide binding]; other site 458817001820 ssDNA binding site [nucleotide binding]; other site 458817001821 tetramer (dimer of dimers) interface [polypeptide binding]; other site 458817001822 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 458817001823 GAF domain; Region: GAF; cl15785 458817001824 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 458817001825 Walker A motif; other site 458817001826 ATP binding site [chemical binding]; other site 458817001827 Walker B motif; other site 458817001828 arginine finger; other site 458817001829 Helix-turn-helix domains; Region: HTH; cl00088 458817001830 aspartate/ornithine carbamoyltransferase family protein; Validated; Region: PRK07200 458817001831 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 458817001832 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817001833 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 458817001834 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cd00640 458817001835 catalytic residue [active] 458817001836 peptidase; Reviewed; Region: PRK13004 458817001837 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 458817001838 putative metal binding site [ion binding]; other site 458817001839 putative dimer interface [polypeptide binding]; other site 458817001840 phenylhydantoinase; Validated; Region: PRK08323 458817001841 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 458817001842 tetramer interface [polypeptide binding]; other site 458817001843 active site 458817001844 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 458817001845 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 458817001846 putative substrate binding site [chemical binding]; other site 458817001847 nucleotide binding site [chemical binding]; other site 458817001848 nucleotide binding site [chemical binding]; other site 458817001849 homodimer interface [polypeptide binding]; other site 458817001850 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Provisional; Region: PRK12779 458817001851 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817001852 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817001853 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 458817001854 FAD binding pocket [chemical binding]; other site 458817001855 FAD binding motif [chemical binding]; other site 458817001856 phosphate binding motif [ion binding]; other site 458817001857 beta-alpha-beta structure motif; other site 458817001858 NAD binding pocket [chemical binding]; other site 458817001859 Iron coordination center [ion binding]; other site 458817001860 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 458817001861 dimer interface [polypeptide binding]; other site 458817001862 PYR/PP interface [polypeptide binding]; other site 458817001863 TPP binding site [chemical binding]; other site 458817001864 substrate binding site [chemical binding]; other site 458817001865 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 458817001866 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 458817001867 4Fe-4S binding domain; Region: Fer4; cl02805 458817001868 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 458817001869 4Fe-4S binding domain; Region: Fer4; cl02805 458817001870 Thiamine pyrophosphate (TPP family), Pyruvate ferredoxin/flavodoxin oxidoreductase (PFOR) subfamily, TPP-binding module; PFOR catalyzes the oxidative decarboxylation of pyruvate to form acetyl-CoA, a crucial step in many metabolic pathways. Archaea; Region: TPP_PFOR; cd02018 458817001871 dimer interface [polypeptide binding]; other site 458817001872 TPP-binding site [chemical binding]; other site 458817001873 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 458817001874 Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); Region: DUF2082; cl01381 458817001875 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 458817001876 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 458817001877 XdhC Rossmann domain; Region: XdhC_C; pfam13478 458817001878 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 458817001879 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 458817001880 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 458817001881 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 458817001882 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 458817001883 Ligand binding site; other site 458817001884 metal-binding site 458817001885 putative selenate reductase subunit YgfK; Provisional; Region: PRK09853 458817001886 putative chlorohydrolase/aminohydrolase; Validated; Region: PRK07203 458817001887 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 458817001888 active site 458817001889 putative substrate binding pocket [chemical binding]; other site 458817001890 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 458817001891 homotrimer interaction site [polypeptide binding]; other site 458817001892 putative active site [active] 458817001893 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 458817001894 homotrimer interaction site [polypeptide binding]; other site 458817001895 putative active site [active] 458817001896 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 458817001897 homotrimer interaction site [polypeptide binding]; other site 458817001898 putative active site [active] 458817001899 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 458817001900 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 458817001901 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 458817001902 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 458817001903 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 458817001904 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 458817001905 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 458817001906 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 458817001907 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 458817001908 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817001909 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 458817001910 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 458817001911 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 458817001912 putative oxidoreductase; Provisional; Region: PRK09799 458817001913 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 458817001914 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 458817001915 putative hypoxanthine oxidase; Provisional; Region: PRK09800 458817001916 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 458817001917 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 458817001918 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 458817001919 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 458817001920 xanthine permease; Region: pbuX; TIGR03173 458817001921 guanine deaminase; Provisional; Region: PRK09228 458817001922 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 458817001923 active site 458817001924 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 458817001925 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 458817001926 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 458817001927 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; cl00159 458817001928 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458817001929 4Fe-4S binding domain; Region: Fer4; cl02805 458817001930 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 458817001931 4Fe-4S binding domain; Region: Fer4; cl02805 458817001932 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 458817001933 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 458817001934 [4Fe-4S] binding site [ion binding]; other site 458817001935 molybdopterin cofactor binding site; other site 458817001936 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 458817001937 molybdopterin cofactor binding site; other site 458817001938 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 458817001939 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 458817001940 active site 458817001941 catalytic residues [active] 458817001942 galactokinase; Provisional; Region: PRK05101 458817001943 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 458817001944 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 458817001945 Sodium:solute symporter family; Region: SSF; cl00456 458817001946 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 458817001947 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 458817001948 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 458817001949 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 458817001950 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 458817001951 translocation protein TolB; Provisional; Region: tolB; PRK04792 458817001952 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 458817001953 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 458817001954 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 458817001955 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817001956 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 458817001957 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 458817001958 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 458817001959 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 458817001960 DsbD alpha interface [polypeptide binding]; other site 458817001961 catalytic residues [active] 458817001962 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 458817001963 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 458817001964 Protein kinase domain; Region: Pkinase; pfam00069 458817001965 Catalytic domain of Protein Kinases; Region: PKc; cd00180 458817001966 active site 458817001967 ATP binding site [chemical binding]; other site 458817001968 substrate binding site [chemical binding]; other site 458817001969 activation loop (A-loop); other site 458817001970 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; cl15754 458817001971 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 458817001972 eyelet of channel; other site 458817001973 trimer interface [polypeptide binding]; other site 458817001974 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 458817001975 eyelet of channel; other site 458817001976 trimer interface [polypeptide binding]; other site 458817001977 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 458817001978 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 458817001979 putative ATP binding site [chemical binding]; other site 458817001980 putative substrate interface [chemical binding]; other site 458817001981 Superinfection exclusion protein B; Region: SieB; pfam14163 458817001982 Protein of unknown function (DUF3149); Region: DUF3149; pfam11346 458817001983 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 458817001984 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 458817001985 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 458817001986 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 458817001987 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 458817001988 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 458817001989 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 458817001990 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817001991 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 458817001992 metabolite-proton symporter; Region: 2A0106; TIGR00883 458817001993 putative substrate translocation pore; other site 458817001994 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 458817001995 EamA-like transporter family; Region: EamA; cl01037 458817001996 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 458817001997 homotrimer interaction site [polypeptide binding]; other site 458817001998 putative active site [active] 458817001999 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 458817002000 homotrimer interaction site [polypeptide binding]; other site 458817002001 putative active site [active] 458817002002 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 458817002003 homotrimer interaction site [polypeptide binding]; other site 458817002004 putative active site [active] 458817002005 ornithine carbamoyltransferase; Validated; Region: PRK02102 458817002006 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 458817002007 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817002008 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 458817002009 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 458817002010 putative substrate binding site [chemical binding]; other site 458817002011 nucleotide binding site [chemical binding]; other site 458817002012 nucleotide binding site [chemical binding]; other site 458817002013 homodimer interface [polypeptide binding]; other site 458817002014 Amidinotransferase; Region: Amidinotransf; cl12043 458817002015 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 458817002016 hypothetical protein; Provisional; Region: PRK09947 458817002017 putative oxidoreductase; Provisional; Region: PRK09849 458817002018 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 458817002019 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 458817002020 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 458817002021 hypothetical protein; Provisional; Region: PRK09898 458817002022 4Fe-4S binding domain; Region: Fer4; cl02805 458817002023 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 458817002024 active site 458817002025 putative substrate binding region [chemical binding]; other site 458817002026 Protein of unknown function (DUF342); Region: DUF342; pfam03961 458817002027 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 458817002028 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 458817002029 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 458817002030 S-adenosylmethionine binding site [chemical binding]; other site 458817002031 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 458817002032 dimer interface [polypeptide binding]; other site 458817002033 Alkaline phosphatase homologues; Region: alkPPc; smart00098 458817002034 active site 458817002035 glutathione synthetase; Provisional; Region: PRK05246 458817002036 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 458817002037 ATP-grasp domain; Region: ATP-grasp_4; cl03087 458817002038 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 458817002039 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 458817002040 DNA-specific endonuclease I; Provisional; Region: PRK15137 458817002041 Endonuclease I; Region: Endonuclease_1; cl01003 458817002042 hypothetical protein; Provisional; Region: PRK04860 458817002043 SprT homologues; Region: SprT; cl01182 458817002044 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 458817002045 putative substrate binding pocket [chemical binding]; other site 458817002046 AC domain interface; other site 458817002047 catalytic triad [active] 458817002048 AB domain interface; other site 458817002049 interchain disulfide; other site 458817002050 LysR family transcriptional regulator; Provisional; Region: PRK14997 458817002051 Helix-turn-helix domains; Region: HTH; cl00088 458817002052 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 458817002053 putative effector binding pocket; other site 458817002054 dimerization interface [polypeptide binding]; other site 458817002055 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 458817002056 Acetyl-CoA carboxylase beta subunit [Lipid metabolism]; Region: AccD; COG0777 458817002057 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 458817002058 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 458817002059 ATP-grasp domain; Region: ATP-grasp_4; cl03087 458817002060 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 458817002061 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 458817002062 carboxyltransferase (CT) interaction site; other site 458817002063 biotinylation site [posttranslational modification]; other site 458817002064 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 458817002065 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 458817002066 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 458817002067 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 458817002068 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 458817002069 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 458817002070 motif II; other site 458817002071 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 458817002072 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 458817002073 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817002074 Helix-turn-helix domains; Region: HTH; cl00088 458817002075 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 458817002076 putative dimerization interface [polypeptide binding]; other site 458817002077 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 458817002078 Ligand Binding Site [chemical binding]; other site 458817002079 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 458817002080 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 458817002081 4Fe-4S binding domain; Region: Fer4_5; pfam12801 458817002082 4Fe-4S binding domain; Region: Fer4_5; pfam12801 458817002083 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 458817002084 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 458817002085 4Fe-4S binding domain; Region: Fer4; cl02805 458817002086 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 458817002087 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 458817002088 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 458817002089 [4Fe-4S] binding site [ion binding]; other site 458817002090 molybdopterin cofactor binding site; other site 458817002091 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 458817002092 molybdopterin cofactor binding site; other site 458817002093 NapD protein; Region: NapD; cl01163 458817002094 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 458817002095 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 458817002096 FtsX-like permease family; Region: FtsX; cl15850 458817002097 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 458817002098 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 458817002099 Walker A/P-loop; other site 458817002100 ATP binding site [chemical binding]; other site 458817002101 Q-loop/lid; other site 458817002102 ABC transporter signature motif; other site 458817002103 Walker B; other site 458817002104 D-loop; other site 458817002105 H-loop/switch region; other site 458817002106 Cache domain; Region: Cache_1; pfam02743 458817002107 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 458817002108 PAS domain; Region: PAS_9; pfam13426 458817002109 PAS domain S-box; Region: sensory_box; TIGR00229 458817002110 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 458817002111 putative active site [active] 458817002112 heme pocket [chemical binding]; other site 458817002113 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 458817002114 PAS fold; Region: PAS_3; pfam08447 458817002115 putative active site [active] 458817002116 heme pocket [chemical binding]; other site 458817002117 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 458817002118 putative active site [active] 458817002119 heme pocket [chemical binding]; other site 458817002120 PAS domain S-box; Region: sensory_box; TIGR00229 458817002121 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 458817002122 putative active site [active] 458817002123 heme pocket [chemical binding]; other site 458817002124 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 458817002125 dimer interface [polypeptide binding]; other site 458817002126 phosphorylation site [posttranslational modification] 458817002127 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 458817002128 ATP binding site [chemical binding]; other site 458817002129 Mg2+ binding site [ion binding]; other site 458817002130 G-X-G motif; other site 458817002131 Response regulator receiver domain; Region: Response_reg; pfam00072 458817002132 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817002133 active site 458817002134 phosphorylation site [posttranslational modification] 458817002135 intermolecular recognition site; other site 458817002136 dimerization interface [polypeptide binding]; other site 458817002137 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817002138 Response regulator receiver domain; Region: Response_reg; pfam00072 458817002139 active site 458817002140 phosphorylation site [posttranslational modification] 458817002141 intermolecular recognition site; other site 458817002142 dimerization interface [polypeptide binding]; other site 458817002143 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 458817002144 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 458817002145 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817002146 active site 458817002147 phosphorylation site [posttranslational modification] 458817002148 intermolecular recognition site; other site 458817002149 dimerization interface [polypeptide binding]; other site 458817002150 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 458817002151 Zn2+ binding site [ion binding]; other site 458817002152 Mg2+ binding site [ion binding]; other site 458817002153 putative global regulator; Reviewed; Region: PRK09559 458817002154 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 458817002155 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 458817002156 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817002157 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 458817002158 L-serine binding site [chemical binding]; other site 458817002159 ACT domain interface; other site 458817002160 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 458817002161 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 458817002162 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 458817002163 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 458817002164 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 458817002165 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 458817002166 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 458817002167 CoenzymeA binding site [chemical binding]; other site 458817002168 subunit interaction site [polypeptide binding]; other site 458817002169 PHB binding site; other site 458817002170 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 458817002171 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 458817002172 tetramer interface [polypeptide binding]; other site 458817002173 heme binding pocket [chemical binding]; other site 458817002174 NADPH binding site [chemical binding]; other site 458817002175 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 458817002176 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 458817002177 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 458817002178 aromatic amino acid transport protein; Region: araaP; TIGR00837 458817002179 Peptidase S46; Region: Peptidase_S46; pfam10459 458817002180 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 458817002181 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 458817002182 RNA binding surface [nucleotide binding]; other site 458817002183 PseudoU_synth_RluF_like: Pseudouridine synthase, Escherichia coli RluF like. This group is comprised of bacterial proteins similar to Escherichia coli RluF. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluF; cd02554 458817002184 probable active site [active] 458817002185 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 458817002186 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 458817002187 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 458817002188 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 458817002189 homodimer interface [polypeptide binding]; other site 458817002190 substrate-cofactor binding pocket; other site 458817002191 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817002192 catalytic residue [active] 458817002193 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817002194 metal binding site [ion binding]; metal-binding site 458817002195 active site 458817002196 I-site; other site 458817002197 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 458817002198 trimer interface [polypeptide binding]; other site 458817002199 eyelet of channel; other site 458817002200 Protein of unknown function (DUF541); Region: SIMPL; cl01077 458817002201 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 458817002202 putative FMN binding site [chemical binding]; other site 458817002203 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 458817002204 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 458817002205 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 458817002206 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 458817002207 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 458817002208 aromatic acid decarboxylase; Validated; Region: PRK05920 458817002209 Flavoprotein; Region: Flavoprotein; cl08021 458817002210 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 458817002211 active site 458817002212 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 458817002213 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817002214 Walker A/P-loop; other site 458817002215 ATP binding site [chemical binding]; other site 458817002216 Q-loop/lid; other site 458817002217 ABC transporter signature motif; other site 458817002218 Walker B; other site 458817002219 D-loop; other site 458817002220 H-loop/switch region; other site 458817002221 ABC-2 type transporter; Region: ABC2_membrane; cl11417 458817002222 pantoate--beta-alanine ligase; Region: panC; TIGR00018 458817002223 Pantoate-beta-alanine ligase; Region: PanC; cd00560 458817002224 active site 458817002225 ATP-binding site [chemical binding]; other site 458817002226 pantoate-binding site; other site 458817002227 HXXH motif; other site 458817002228 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 458817002229 oligomerization interface [polypeptide binding]; other site 458817002230 active site 458817002231 metal binding site [ion binding]; metal-binding site 458817002232 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 458817002233 catalytic center binding site [active] 458817002234 ATP binding site [chemical binding]; other site 458817002235 poly(A) polymerase; Region: pcnB; TIGR01942 458817002236 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 458817002237 active site 458817002238 NTP binding site [chemical binding]; other site 458817002239 metal binding triad [ion binding]; metal-binding site 458817002240 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 458817002241 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 458817002242 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 458817002243 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 458817002244 active site 458817002245 HIGH motif; other site 458817002246 nucleotide binding site [chemical binding]; other site 458817002247 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 458817002248 active site 458817002249 KMSKS motif; other site 458817002250 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 458817002251 Sugar fermentation stimulation protein; Region: SfsA; cl00647 458817002252 aminopeptidase B; Provisional; Region: PRK05015 458817002253 Peptidase; Region: DUF3663; pfam12404 458817002254 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 458817002255 interface (dimer of trimers) [polypeptide binding]; other site 458817002256 Substrate-binding/catalytic site; other site 458817002257 Zn-binding sites [ion binding]; other site 458817002258 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 458817002259 DNA binding site [nucleotide binding] 458817002260 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817002261 active site 458817002262 phosphorylation site [posttranslational modification] 458817002263 intermolecular recognition site; other site 458817002264 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 458817002265 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 458817002266 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 458817002267 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 458817002268 ATP binding site [chemical binding]; other site 458817002269 putative Mg++ binding site [ion binding]; other site 458817002270 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817002271 Helicase associated domain (HA2); Region: HA2; cl04503 458817002272 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 458817002273 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 458817002274 Transglycosylase; Region: Transgly; cl07896 458817002275 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 458817002276 putative arabinose transporter; Provisional; Region: PRK03545 458817002277 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 458817002278 putative substrate translocation pore; other site 458817002279 Predicted acetyltransferase [General function prediction only]; Region: COG3153 458817002280 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458817002281 Coenzyme A binding pocket [chemical binding]; other site 458817002282 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 458817002283 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 458817002284 N-terminal plug; other site 458817002285 ligand-binding site [chemical binding]; other site 458817002286 Protein of unknown function (DUF3581); Region: DUF3581; pfam12119 458817002287 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 458817002288 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 458817002289 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 458817002290 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 458817002291 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 458817002292 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 458817002293 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817002294 active site 458817002295 phosphorylation site [posttranslational modification] 458817002296 intermolecular recognition site; other site 458817002297 dimerization interface [polypeptide binding]; other site 458817002298 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 458817002299 Walker A motif; other site 458817002300 ATP binding site [chemical binding]; other site 458817002301 Walker B motif; other site 458817002302 arginine finger; other site 458817002303 Helix-turn-helix domains; Region: HTH; cl00088 458817002304 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 458817002305 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 458817002306 substrate binding pocket [chemical binding]; other site 458817002307 membrane-bound complex binding site; other site 458817002308 hinge residues; other site 458817002309 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 458817002310 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 458817002311 dimer interface [polypeptide binding]; other site 458817002312 phosphorylation site [posttranslational modification] 458817002313 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 458817002314 ATP binding site [chemical binding]; other site 458817002315 Mg2+ binding site [ion binding]; other site 458817002316 G-X-G motif; other site 458817002317 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 458817002318 heme-binding residues [chemical binding]; other site 458817002319 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 458817002320 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817002321 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 458817002322 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 458817002323 ligand binding site [chemical binding]; other site 458817002324 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 458817002325 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 458817002326 Walker A/P-loop; other site 458817002327 ATP binding site [chemical binding]; other site 458817002328 Q-loop/lid; other site 458817002329 ABC transporter signature motif; other site 458817002330 Walker B; other site 458817002331 D-loop; other site 458817002332 H-loop/switch region; other site 458817002333 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 458817002334 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 458817002335 TM-ABC transporter signature motif; other site 458817002336 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 458817002337 TM-ABC transporter signature motif; other site 458817002338 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 458817002339 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 458817002340 AMP binding site [chemical binding]; other site 458817002341 metal binding site [ion binding]; metal-binding site 458817002342 active site 458817002343 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 458817002344 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458817002345 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 458817002346 two-component response regulator; Provisional; Region: PRK11173 458817002347 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817002348 active site 458817002349 phosphorylation site [posttranslational modification] 458817002350 intermolecular recognition site; other site 458817002351 dimerization interface [polypeptide binding]; other site 458817002352 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 458817002353 DNA binding site [nucleotide binding] 458817002354 Protein of unknown function (DUF3293); Region: DUF3293; pfam11697 458817002355 aspartate kinase III; Validated; Region: PRK09084 458817002356 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 458817002357 nucleotide binding site [chemical binding]; other site 458817002358 substrate binding site [chemical binding]; other site 458817002359 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 458817002360 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 458817002361 dimer interface [polypeptide binding]; other site 458817002362 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 458817002363 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 458817002364 active site 458817002365 Zn binding site [ion binding]; other site 458817002366 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 458817002367 Helix-turn-helix domains; Region: HTH; cl00088 458817002368 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 458817002369 active site 458817002370 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 458817002371 S-adenosylmethionine binding site [chemical binding]; other site 458817002372 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 458817002373 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817002374 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 458817002375 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 458817002376 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 458817002377 peroxiredoxin; Region: AhpC; TIGR03137 458817002378 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 458817002379 dimer interface [polypeptide binding]; other site 458817002380 decamer (pentamer of dimers) interface [polypeptide binding]; other site 458817002381 catalytic triad [active] 458817002382 peroxidatic and resolving cysteines [active] 458817002383 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 458817002384 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 458817002385 catalytic residue [active] 458817002386 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 458817002387 catalytic residues [active] 458817002388 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458817002389 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817002390 metal binding site [ion binding]; metal-binding site 458817002391 active site 458817002392 I-site; other site 458817002393 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 458817002394 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 458817002395 Chromate transporter; Region: Chromate_transp; pfam02417 458817002396 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 458817002397 Chromate transporter; Region: Chromate_transp; pfam02417 458817002398 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 458817002399 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; cl00159 458817002400 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458817002401 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 458817002402 4Fe-4S binding domain; Region: Fer4; cl02805 458817002403 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 458817002404 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 458817002405 [4Fe-4S] binding site [ion binding]; other site 458817002406 molybdopterin cofactor binding site; other site 458817002407 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 458817002408 molybdopterin cofactor binding site; other site 458817002409 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 458817002410 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 458817002411 Ion channel; Region: Ion_trans_2; cl11596 458817002412 RF-1 domain; Region: RF-1; cl02875 458817002413 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 458817002414 RF-1 domain; Region: RF-1; cl02875 458817002415 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 458817002416 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 458817002417 dimer interface [polypeptide binding]; other site 458817002418 putative anticodon binding site; other site 458817002419 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 458817002420 motif 1; other site 458817002421 active site 458817002422 motif 2; other site 458817002423 motif 3; other site 458817002424 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 458817002425 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 458817002426 PAS domain; Region: PAS_9; pfam13426 458817002427 putative active site [active] 458817002428 heme pocket [chemical binding]; other site 458817002429 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817002430 metal binding site [ion binding]; metal-binding site 458817002431 active site 458817002432 I-site; other site 458817002433 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 458817002434 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 458817002435 pseudouridine synthase; Region: TIGR00093 458817002436 active site 458817002437 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 458817002438 active site 458817002439 trimer interface [polypeptide binding]; other site 458817002440 allosteric site; other site 458817002441 active site lid [active] 458817002442 hexamer (dimer of trimers) interface [polypeptide binding]; other site 458817002443 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 458817002444 putative FMN binding site [chemical binding]; other site 458817002445 putative dimer interface [polypeptide binding]; other site 458817002446 Cupin domain; Region: Cupin_2; cl09118 458817002447 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 458817002448 Peptidase family U32; Region: Peptidase_U32; cl03113 458817002449 Collagenase; Region: DUF3656; pfam12392 458817002450 Protein of unknown function (DUF1696); Region: DUF1696; pfam08000 458817002451 Fe-S metabolism associated domain; Region: SufE; cl00951 458817002452 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 458817002453 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 458817002454 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458817002455 catalytic residue [active] 458817002456 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 458817002457 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 458817002458 active site 458817002459 catalytic tetrad [active] 458817002460 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 458817002461 Helix-turn-helix domains; Region: HTH; cl00088 458817002462 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 458817002463 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458817002464 Coenzyme A binding pocket [chemical binding]; other site 458817002465 Protein of unknown function DUF84; Region: NTPase_I-T; cl00866 458817002466 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 458817002467 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 458817002468 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 458817002469 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 458817002470 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 458817002471 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 458817002472 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458817002473 Coenzyme A binding pocket [chemical binding]; other site 458817002474 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 458817002475 META domain; Region: META; cl01245 458817002476 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817002477 I-site; other site 458817002478 active site 458817002479 metal binding site [ion binding]; metal-binding site 458817002480 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 458817002481 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 458817002482 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 458817002483 Restriction endonuclease; Region: Mrr_cat; cl00516 458817002484 Domain of unknown function (DUF955); Region: DUF955; cl01076 458817002485 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458817002486 Coenzyme A binding pocket [chemical binding]; other site 458817002487 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 458817002488 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 458817002489 DNA binding residues [nucleotide binding] 458817002490 dimerization interface [polypeptide binding]; other site 458817002491 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 458817002492 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 458817002493 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 458817002494 PYR/PP interface [polypeptide binding]; other site 458817002495 dimer interface [polypeptide binding]; other site 458817002496 TPP binding site [chemical binding]; other site 458817002497 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 458817002498 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 458817002499 TPP-binding site [chemical binding]; other site 458817002500 S-adenosylmethionine synthetase; Validated; Region: PRK05250 458817002501 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 458817002502 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 458817002503 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 458817002504 transketolase; Reviewed; Region: PRK12753 458817002505 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 458817002506 TPP-binding site [chemical binding]; other site 458817002507 dimer interface [polypeptide binding]; other site 458817002508 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 458817002509 PYR/PP interface [polypeptide binding]; other site 458817002510 dimer interface [polypeptide binding]; other site 458817002511 TPP binding site [chemical binding]; other site 458817002512 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 458817002513 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 458817002514 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817002515 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 458817002516 Phosphoglycerate kinase; Region: PGK; pfam00162 458817002517 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cl00198 458817002518 substrate binding site [chemical binding]; other site 458817002519 hinge regions; other site 458817002520 ADP binding site [chemical binding]; other site 458817002521 catalytic site [active] 458817002522 hypothetical protein; Provisional; Region: PRK08185 458817002523 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 458817002524 intersubunit interface [polypeptide binding]; other site 458817002525 active site 458817002526 zinc binding site [ion binding]; other site 458817002527 Na+ binding site [ion binding]; other site 458817002528 Protein of unknown function, DUF481; Region: DUF481; cl01213 458817002529 Helix-turn-helix domains; Region: HTH; cl00088 458817002530 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 458817002531 PAS domain; Region: PAS_9; pfam13426 458817002532 putative active site [active] 458817002533 heme pocket [chemical binding]; other site 458817002534 PAS domain; Region: PAS_9; pfam13426 458817002535 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817002536 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 458817002537 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 458817002538 FeS/SAM binding site; other site 458817002539 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 458817002540 Protein export membrane protein; Region: SecD_SecF; cl14618 458817002541 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817002542 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817002543 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 458817002544 DEAD-like helicases superfamily; Region: DEXDc; smart00487 458817002545 ATP binding site [chemical binding]; other site 458817002546 Mg++ binding site [ion binding]; other site 458817002547 motif III; other site 458817002548 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 458817002549 nucleotide binding region [chemical binding]; other site 458817002550 ATP-binding site [chemical binding]; other site 458817002551 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 458817002552 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 458817002553 S-adenosylmethionine binding site [chemical binding]; other site 458817002554 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 458817002555 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 458817002556 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 458817002557 Int/Topo IB signature motif; other site 458817002558 active site 458817002559 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 458817002560 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 458817002561 dimerization domain [polypeptide binding]; other site 458817002562 dimer interface [polypeptide binding]; other site 458817002563 catalytic residues [active] 458817002564 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 458817002565 DHH family; Region: DHH; pfam01368 458817002566 DHHA1 domain; Region: DHHA1; pfam02272 458817002567 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 458817002568 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 458817002569 putative DNA binding site [nucleotide binding]; other site 458817002570 putative Zn2+ binding site [ion binding]; other site 458817002571 Helix-turn-helix domains; Region: HTH; cl00088 458817002572 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 458817002573 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 458817002574 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 458817002575 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 458817002576 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 458817002577 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 458817002578 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 458817002579 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 458817002580 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 458817002581 conserved cys residue [active] 458817002582 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 458817002583 LysE type translocator; Region: LysE; cl00565 458817002584 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 458817002585 tetramer (dimer of dimers) interface [polypeptide binding]; other site 458817002586 active site 458817002587 dimer interface [polypeptide binding]; other site 458817002588 Protein of unknown function (DUF808); Region: DUF808; cl01002 458817002589 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 458817002590 putative catalytic site [active] 458817002591 putative metal binding site [ion binding]; other site 458817002592 putative phosphate binding site [ion binding]; other site 458817002593 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 458817002594 PhoD-like phosphatase; Region: PhoD; pfam09423 458817002595 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 458817002596 putative active site [active] 458817002597 putative metal binding site [ion binding]; other site 458817002598 PhoD-like phosphatase; Region: PhoD; pfam09423 458817002599 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 458817002600 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 458817002601 active site 458817002602 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 458817002603 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 458817002604 Zn binding site [ion binding]; other site 458817002605 TolB amino-terminal domain; Region: TolB_N; cl00639 458817002606 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 458817002607 SlyX; Region: SlyX; cl01090 458817002608 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 458817002609 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 458817002610 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 458817002611 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 458817002612 active site 458817002613 Uncharacterized protein family (UPF0231); Region: UPF0231; cl11474 458817002614 transcriptional regulator NarL; Provisional; Region: PRK10651 458817002615 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817002616 active site 458817002617 phosphorylation site [posttranslational modification] 458817002618 intermolecular recognition site; other site 458817002619 dimerization interface [polypeptide binding]; other site 458817002620 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 458817002621 DNA binding residues [nucleotide binding] 458817002622 dimerization interface [polypeptide binding]; other site 458817002623 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 458817002624 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 458817002625 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 458817002626 Histidine kinase; Region: HisKA_3; pfam07730 458817002627 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 458817002628 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 458817002629 Isochorismatase family; Region: Isochorismatase; pfam00857 458817002630 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 458817002631 catalytic triad [active] 458817002632 dimer interface [polypeptide binding]; other site 458817002633 conserved cis-peptide bond; other site 458817002634 Nitrogen regulatory protein P-II; Region: P-II; cl00412 458817002635 Nitrogen regulatory protein P-II; Region: P-II; smart00938 458817002636 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 458817002637 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 458817002638 binding surface 458817002639 Tetratricopeptide repeat; Region: TPR_16; pfam13432 458817002640 TPR motif; other site 458817002641 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 458817002642 binding surface 458817002643 TPR motif; other site 458817002644 TPR repeat; Region: TPR_11; pfam13414 458817002645 NeuB family; Region: NeuB; cl00496 458817002646 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 458817002647 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 458817002648 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 458817002649 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817002650 Walker A/P-loop; other site 458817002651 ATP binding site [chemical binding]; other site 458817002652 Q-loop/lid; other site 458817002653 ABC transporter signature motif; other site 458817002654 Walker B; other site 458817002655 D-loop; other site 458817002656 H-loop/switch region; other site 458817002657 ferredoxin-NADP reductase; Provisional; Region: PRK10926 458817002658 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 458817002659 FAD binding pocket [chemical binding]; other site 458817002660 FAD binding motif [chemical binding]; other site 458817002661 phosphate binding motif [ion binding]; other site 458817002662 beta-alpha-beta structure motif; other site 458817002663 NAD binding pocket [chemical binding]; other site 458817002664 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 458817002665 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 458817002666 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 458817002667 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 458817002668 dimer interface [polypeptide binding]; other site 458817002669 conserved gate region; other site 458817002670 putative PBP binding loops; other site 458817002671 ABC-ATPase subunit interface; other site 458817002672 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 458817002673 dimer interface [polypeptide binding]; other site 458817002674 conserved gate region; other site 458817002675 putative PBP binding loops; other site 458817002676 ABC-ATPase subunit interface; other site 458817002677 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 458817002678 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 458817002679 Walker A/P-loop; other site 458817002680 ATP binding site [chemical binding]; other site 458817002681 Q-loop/lid; other site 458817002682 ABC transporter signature motif; other site 458817002683 Walker B; other site 458817002684 D-loop; other site 458817002685 H-loop/switch region; other site 458817002686 TOBE domain; Region: TOBE_2; cl01440 458817002687 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 458817002688 Cupin domain; Region: Cupin_2; cl09118 458817002689 arginine repressor; Provisional; Region: PRK05066 458817002690 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 458817002691 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 458817002692 malate dehydrogenase; Provisional; Region: PRK05086 458817002693 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 458817002694 NAD binding site [chemical binding]; other site 458817002695 dimerization interface [polypeptide binding]; other site 458817002696 Substrate binding site [chemical binding]; other site 458817002697 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 458817002698 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 458817002699 substrate binding pocket [chemical binding]; other site 458817002700 chain length determination region; other site 458817002701 substrate-Mg2+ binding site; other site 458817002702 catalytic residues [active] 458817002703 aspartate-rich region 1; other site 458817002704 active site lid residues [active] 458817002705 aspartate-rich region 2; other site 458817002706 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 458817002707 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 458817002708 GTPase CgtA; Reviewed; Region: obgE; PRK12298 458817002709 GTP1/OBG; Region: GTP1_OBG; pfam01018 458817002710 Obg GTPase; Region: Obg; cd01898 458817002711 G1 box; other site 458817002712 GTP/Mg2+ binding site [chemical binding]; other site 458817002713 Switch I region; other site 458817002714 G2 box; other site 458817002715 G3 box; other site 458817002716 Switch II region; other site 458817002717 G4 box; other site 458817002718 G5 box; other site 458817002719 Uncharacterized conserved protein [Function unknown]; Region: COG2966 458817002720 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 458817002721 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 458817002722 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 458817002723 NADP+ binding site [chemical binding]; other site 458817002724 folate binding site [chemical binding]; other site 458817002725 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 458817002726 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 458817002727 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 458817002728 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817002729 dimer interface [polypeptide binding]; other site 458817002730 putative CheW interface [polypeptide binding]; other site 458817002731 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 458817002732 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 458817002733 active site 458817002734 metal binding site [ion binding]; metal-binding site 458817002735 Protein of unknown function (DUF525); Region: DUF525; cl01119 458817002736 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817002737 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 458817002738 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 458817002739 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 458817002740 SurA N-terminal domain; Region: SurA_N_3; cl07813 458817002741 PPIC-type PPIASE domain; Region: Rotamase; cl08278 458817002742 PPIC-type PPIASE domain; Region: Rotamase; cl08278 458817002743 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 458817002744 OstA-like protein; Region: OstA; cl00844 458817002745 Organic solvent tolerance protein; Region: OstA_C; pfam04453 458817002746 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 458817002747 Phosphotransferase enzyme family; Region: APH; pfam01636 458817002748 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 458817002749 Substrate binding site; other site 458817002750 metal-binding site 458817002751 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 458817002752 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 458817002753 putative metal binding site [ion binding]; other site 458817002754 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 458817002755 HSP70 interaction site [polypeptide binding]; other site 458817002756 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 458817002757 glycerate dehydrogenase; Provisional; Region: PRK06487 458817002758 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817002759 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 458817002760 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817002761 ATP-grasp domain; Region: ATP-grasp_4; cl03087 458817002762 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 458817002763 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 458817002764 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817002765 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817002766 Ycf46; Provisional; Region: ycf46; CHL00195 458817002767 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 458817002768 Walker A motif; other site 458817002769 ATP binding site [chemical binding]; other site 458817002770 Walker B motif; other site 458817002771 arginine finger; other site 458817002772 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 458817002773 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 458817002774 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 458817002775 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 458817002776 dimer interface [polypeptide binding]; other site 458817002777 phosphorylation site [posttranslational modification] 458817002778 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 458817002779 ATP binding site [chemical binding]; other site 458817002780 Mg2+ binding site [ion binding]; other site 458817002781 G-X-G motif; other site 458817002782 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 458817002783 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817002784 active site 458817002785 phosphorylation site [posttranslational modification] 458817002786 intermolecular recognition site; other site 458817002787 dimerization interface [polypeptide binding]; other site 458817002788 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 458817002789 DNA binding site [nucleotide binding] 458817002790 Protein of unknown function (DUF3019); Region: DUF3019; pfam11456 458817002791 MltA-interacting protein MipA; Region: MipA; cl01504 458817002792 putative acetyltransferase YhhY; Provisional; Region: PRK10140 458817002793 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458817002794 Coenzyme A binding pocket [chemical binding]; other site 458817002795 YcxB-like protein; Region: YcxB; pfam14317 458817002796 Domain of unknown function (DUF1971); Region: DUF1971; cl01451 458817002797 universal stress protein UspE; Provisional; Region: PRK11175 458817002798 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 458817002799 Ligand Binding Site [chemical binding]; other site 458817002800 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 458817002801 Ligand Binding Site [chemical binding]; other site 458817002802 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 458817002803 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 458817002804 active site 458817002805 metal binding site [ion binding]; metal-binding site 458817002806 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 458817002807 Predicted transcriptional regulator [Transcription]; Region: COG2345 458817002808 Helix-turn-helix domains; Region: HTH; cl00088 458817002809 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 458817002810 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 458817002811 active site 458817002812 uracil binding [chemical binding]; other site 458817002813 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 458817002814 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 458817002815 putative substrate translocation pore; other site 458817002816 Major Facilitator Superfamily; Region: MFS_1; pfam07690 458817002817 LrgB-like family; Region: LrgB; cl00596 458817002818 LrgA family; Region: LrgA; cl00608 458817002819 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817002820 Helix-turn-helix domains; Region: HTH; cl00088 458817002821 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 458817002822 dimerization interface [polypeptide binding]; other site 458817002823 Proteolipid membrane potential modulator; Region: Pmp3; cl00431 458817002824 AMMECR1; Region: AMMECR1; cl00911 458817002825 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 458817002826 putative ligand binding pocket/active site [active] 458817002827 putative metal binding site [ion binding]; other site 458817002828 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 458817002829 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 458817002830 FeS/SAM binding site; other site 458817002831 Peptidase M60-like family; Region: M60-like; pfam13402 458817002832 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 458817002833 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817002834 dimer interface [polypeptide binding]; other site 458817002835 putative CheW interface [polypeptide binding]; other site 458817002836 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 458817002837 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 458817002838 HIGH motif; other site 458817002839 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 458817002840 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 458817002841 active site 458817002842 KMSKS motif; other site 458817002843 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 458817002844 tRNA binding surface [nucleotide binding]; other site 458817002845 anticodon binding site; other site 458817002846 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 458817002847 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 458817002848 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 458817002849 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817002850 ATP binding site [chemical binding]; other site 458817002851 putative Mg++ binding site [ion binding]; other site 458817002852 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 458817002853 nucleotide binding region [chemical binding]; other site 458817002854 ATP-binding site [chemical binding]; other site 458817002855 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 458817002856 FMN binding site [chemical binding]; other site 458817002857 active site 458817002858 substrate binding site [chemical binding]; other site 458817002859 catalytic residue [active] 458817002860 transcriptional regulator; Provisional; Region: PRK10632 458817002861 Helix-turn-helix domains; Region: HTH; cl00088 458817002862 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 458817002863 putative effector binding pocket; other site 458817002864 dimerization interface [polypeptide binding]; other site 458817002865 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 458817002866 putative catalytic residues [active] 458817002867 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 458817002868 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 458817002869 Domain of unknown function DUF21; Region: DUF21; pfam01595 458817002870 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 458817002871 Transporter associated domain; Region: CorC_HlyC; cl08393 458817002872 multifunctional aminopeptidase A; Provisional; Region: PRK00913 458817002873 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 458817002874 interface (dimer of trimers) [polypeptide binding]; other site 458817002875 Substrate-binding/catalytic site; other site 458817002876 Zn-binding sites [ion binding]; other site 458817002877 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 458817002878 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 458817002879 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 458817002880 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 458817002881 RDD family; Region: RDD; cl00746 458817002882 Protein of unknown function (DUF2960); Region: DUF2960; pfam11173 458817002883 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458817002884 Coenzyme A binding pocket [chemical binding]; other site 458817002885 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 458817002886 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 458817002887 active site 458817002888 Zn binding site [ion binding]; other site 458817002889 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 458817002890 active site 458817002891 catalytic residues [active] 458817002892 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 458817002893 PA/protease or protease-like domain interface [polypeptide binding]; other site 458817002894 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 458817002895 catalytic residues [active] 458817002896 Protein of unknown function (DUF2913); Region: DUF2913; pfam11140 458817002897 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 458817002898 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 458817002899 ATP binding site [chemical binding]; other site 458817002900 Mg++ binding site [ion binding]; other site 458817002901 motif III; other site 458817002902 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 458817002903 nucleotide binding region [chemical binding]; other site 458817002904 ATP-binding site [chemical binding]; other site 458817002905 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 458817002906 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 458817002907 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 458817002908 active site 458817002909 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 458817002910 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 458817002911 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 458817002912 active site 458817002913 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 458817002914 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 458817002915 outer membrane protein A; Reviewed; Region: PRK10808 458817002916 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 458817002917 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 458817002918 ligand binding site [chemical binding]; other site 458817002919 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 458817002920 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 458817002921 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 458817002922 DNA-binding site [nucleotide binding]; DNA binding site 458817002923 RNA-binding motif; other site 458817002924 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 458817002925 Helix-turn-helix domains; Region: HTH; cl00088 458817002926 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 458817002927 CoenzymeA binding site [chemical binding]; other site 458817002928 subunit interaction site [polypeptide binding]; other site 458817002929 PHB binding site; other site 458817002930 Domain of unknown function (DUF368); Region: DUF368; cl00893 458817002931 Protein of unknown function (DUF3634); Region: DUF3634; pfam12321 458817002932 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 458817002933 Cupin domain; Region: Cupin_2; cl09118 458817002934 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 458817002935 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 458817002936 tetrameric interface [polypeptide binding]; other site 458817002937 NAD binding site [chemical binding]; other site 458817002938 catalytic residues [active] 458817002939 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 458817002940 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 458817002941 inhibitor-cofactor binding pocket; inhibition site 458817002942 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817002943 catalytic residue [active] 458817002944 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 458817002945 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 458817002946 NAD(P) binding site [chemical binding]; other site 458817002947 catalytic residues [active] 458817002948 Helix-Turn-Helix DNA binding domain of the Cfa transcription regulator; Region: HTH_Cfa; cd04789 458817002949 DNA binding residues [nucleotide binding] 458817002950 putative dimer interface [polypeptide binding]; other site 458817002951 Methyltransferase domain; Region: Methyltransf_31; pfam13847 458817002952 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 458817002953 S-adenosylmethionine binding site [chemical binding]; other site 458817002954 Predicted acetyltransferase [General function prediction only]; Region: COG3153 458817002955 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458817002956 Coenzyme A binding pocket [chemical binding]; other site 458817002957 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 458817002958 putative active site [active] 458817002959 putative metal binding residues [ion binding]; other site 458817002960 signature motif; other site 458817002961 putative triphosphate binding site [ion binding]; other site 458817002962 dimer interface [polypeptide binding]; other site 458817002963 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 458817002964 aspartate racemase; Region: asp_race; TIGR00035 458817002965 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817002966 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 458817002967 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 458817002968 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 458817002969 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 458817002970 non-specific DNA binding site [nucleotide binding]; other site 458817002971 salt bridge; other site 458817002972 sequence-specific DNA binding site [nucleotide binding]; other site 458817002973 Cupin domain; Region: Cupin_2; cl09118 458817002974 Peptidase C26; Region: Peptidase_C26; pfam07722 458817002975 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 458817002976 catalytic triad [active] 458817002977 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 458817002978 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 458817002979 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 458817002980 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 458817002981 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 458817002982 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817002983 Walker A/P-loop; other site 458817002984 ATP binding site [chemical binding]; other site 458817002985 Q-loop/lid; other site 458817002986 ABC transporter signature motif; other site 458817002987 Walker B; other site 458817002988 D-loop; other site 458817002989 H-loop/switch region; other site 458817002990 TOBE domain; Region: TOBE_2; cl01440 458817002991 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 458817002992 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 458817002993 dimer interface [polypeptide binding]; other site 458817002994 conserved gate region; other site 458817002995 putative PBP binding loops; other site 458817002996 ABC-ATPase subunit interface; other site 458817002997 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 458817002998 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 458817002999 dimer interface [polypeptide binding]; other site 458817003000 conserved gate region; other site 458817003001 putative PBP binding loops; other site 458817003002 ABC-ATPase subunit interface; other site 458817003003 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817003004 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 458817003005 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 458817003006 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 458817003007 tetramerization interface [polypeptide binding]; other site 458817003008 NAD(P) binding site [chemical binding]; other site 458817003009 catalytic residues [active] 458817003010 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 458817003011 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 458817003012 inhibitor-cofactor binding pocket; inhibition site 458817003013 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817003014 catalytic residue [active] 458817003015 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 458817003016 Ligand Binding Site [chemical binding]; other site 458817003017 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 458817003018 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 458817003019 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 458817003020 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 458817003021 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 458817003022 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 458817003023 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 458817003024 DNA binding residues [nucleotide binding] 458817003025 DNA primase; Validated; Region: dnaG; PRK05667 458817003026 CHC2 zinc finger; Region: zf-CHC2; cl15369 458817003027 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 458817003028 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 458817003029 active site 458817003030 metal binding site [ion binding]; metal-binding site 458817003031 interdomain interaction site; other site 458817003032 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 458817003033 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 458817003034 GatB domain; Region: GatB_Yqey; cl11497 458817003035 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 458817003036 UGMP family protein; Validated; Region: PRK09604 458817003037 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 458817003038 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 458817003039 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 458817003040 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 458817003041 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 458817003042 homooctamer interface [polypeptide binding]; other site 458817003043 active site 458817003044 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 458817003045 catalytic center binding site [active] 458817003046 ATP binding site [chemical binding]; other site 458817003047 Bacitracin resistance protein BacA; Region: BacA; cl00858 458817003048 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 458817003049 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817003050 L,D-transpeptidase; Provisional; Region: PRK10190 458817003051 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 458817003052 putative peptidoglycan binding site; other site 458817003053 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 458817003054 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238; cl11539 458817003055 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 458817003056 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 458817003057 active site 458817003058 NTP binding site [chemical binding]; other site 458817003059 metal binding triad [ion binding]; metal-binding site 458817003060 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 458817003061 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 458817003062 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 458817003063 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 458817003064 Walker A motif; other site 458817003065 ATP binding site [chemical binding]; other site 458817003066 Walker B motif; other site 458817003067 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 458817003068 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 458817003069 transmembrane helices; other site 458817003070 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 458817003071 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 458817003072 inhibitor-cofactor binding pocket; inhibition site 458817003073 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817003074 catalytic residue [active] 458817003075 ApbE family; Region: ApbE; cl00643 458817003076 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 458817003077 Cytochrome c; Region: Cytochrom_C; cl11414 458817003078 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 458817003079 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 458817003080 Moco binding site; other site 458817003081 metal coordination site [ion binding]; other site 458817003082 dimerization interface [polypeptide binding]; other site 458817003083 Cytochrome c; Region: Cytochrom_C; cl11414 458817003084 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 458817003085 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 458817003086 Cl- selectivity filter; other site 458817003087 Cl- binding residues [ion binding]; other site 458817003088 pore gating glutamate residue; other site 458817003089 dimer interface [polypeptide binding]; other site 458817003090 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 458817003091 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 458817003092 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 458817003093 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 458817003094 active site 458817003095 dimer interface [polypeptide binding]; other site 458817003096 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 458817003097 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 458817003098 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458817003099 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 458817003100 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 458817003101 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 458817003102 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 458817003103 DNA binding site [nucleotide binding] 458817003104 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 458817003105 translocation protein TolB; Provisional; Region: tolB; PRK02889 458817003106 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 458817003107 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 458817003108 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 458817003109 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 458817003110 putative peptidase; Provisional; Region: PRK11649 458817003111 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 458817003112 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 458817003113 active site 458817003114 HIGH motif; other site 458817003115 dimer interface [polypeptide binding]; other site 458817003116 KMSKS motif; other site 458817003117 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 458817003118 RNA binding surface [nucleotide binding]; other site 458817003119 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 458817003120 hypothetical protein; Provisional; Region: PRK10578 458817003121 UPF0126 domain; Region: UPF0126; pfam03458 458817003122 UPF0126 domain; Region: UPF0126; pfam03458 458817003123 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 458817003124 CobD/Cbib protein; Region: CobD_Cbib; cl00561 458817003125 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 458817003126 CHASE3 domain; Region: CHASE3; cl05000 458817003127 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817003128 metal binding site [ion binding]; metal-binding site 458817003129 active site 458817003130 I-site; other site 458817003131 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458817003132 Coenzyme A binding pocket [chemical binding]; other site 458817003133 Transcriptional regulators [Transcription]; Region: MarR; COG1846 458817003134 Helix-turn-helix domains; Region: HTH; cl00088 458817003135 Helix-turn-helix domains; Region: HTH; cl00088 458817003136 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 458817003137 BCCT family transporter; Region: BCCT; cl00569 458817003138 choline dehydrogenase; Validated; Region: PRK02106 458817003139 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817003140 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 458817003141 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 458817003142 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 458817003143 tetrameric interface [polypeptide binding]; other site 458817003144 NAD binding site [chemical binding]; other site 458817003145 catalytic residues [active] 458817003146 transcriptional regulator BetI; Validated; Region: PRK00767 458817003147 Helix-turn-helix domains; Region: HTH; cl00088 458817003148 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 458817003149 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 458817003150 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 458817003151 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817003152 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 458817003153 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 458817003154 active site 458817003155 dimer interface [polypeptide binding]; other site 458817003156 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 458817003157 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 458817003158 active site 458817003159 FMN binding site [chemical binding]; other site 458817003160 substrate binding site [chemical binding]; other site 458817003161 3Fe-4S cluster binding site [ion binding]; other site 458817003162 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 458817003163 domain interface; other site 458817003164 radical SAM protein, TIGR01212 family; Region: TIGR01212 458817003165 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 458817003166 FeS/SAM binding site; other site 458817003167 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 458817003168 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817003169 Helix-turn-helix domains; Region: HTH; cl00088 458817003170 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 458817003171 dimerization interface [polypeptide binding]; other site 458817003172 cyclase homology domain; Region: CHD; cd07302 458817003173 nucleotidyl binding site; other site 458817003174 metal binding site [ion binding]; metal-binding site 458817003175 dimer interface [polypeptide binding]; other site 458817003176 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 458817003177 putative DNA-binding cleft [nucleotide binding]; other site 458817003178 putative DNA clevage site; other site 458817003179 molecular lever; other site 458817003180 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 458817003181 putative active site [active] 458817003182 Ap4A binding site [chemical binding]; other site 458817003183 nudix motif; other site 458817003184 putative metal binding site [ion binding]; other site 458817003185 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 458817003186 GAF domain; Region: GAF; cl15785 458817003187 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 458817003188 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 458817003189 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 458817003190 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 458817003191 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 458817003192 dimerization interface [polypeptide binding]; other site 458817003193 active site 458817003194 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 458817003195 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 458817003196 Helix-turn-helix domains; Region: HTH; cl00088 458817003197 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 458817003198 dimerization interface [polypeptide binding]; other site 458817003199 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 458817003200 L-aspartate oxidase; Provisional; Region: PRK09077 458817003201 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817003202 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 458817003203 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 458817003204 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 458817003205 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 458817003206 DNA binding residues [nucleotide binding] 458817003207 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 458817003208 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 458817003209 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 458817003210 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 458817003211 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 458817003212 GTP-binding protein LepA; Provisional; Region: PRK05433 458817003213 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 458817003214 G1 box; other site 458817003215 putative GEF interaction site [polypeptide binding]; other site 458817003216 GTP/Mg2+ binding site [chemical binding]; other site 458817003217 Switch I region; other site 458817003218 G2 box; other site 458817003219 G3 box; other site 458817003220 Switch II region; other site 458817003221 G4 box; other site 458817003222 G5 box; other site 458817003223 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 458817003224 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 458817003225 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 458817003226 signal peptidase I; Provisional; Region: PRK10861 458817003227 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 458817003228 Catalytic site [active] 458817003229 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 458817003230 ribonuclease III; Reviewed; Region: rnc; PRK00102 458817003231 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 458817003232 dimerization interface [polypeptide binding]; other site 458817003233 active site 458817003234 metal binding site [ion binding]; metal-binding site 458817003235 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 458817003236 dsRNA binding site [nucleotide binding]; other site 458817003237 GTPase Era; Reviewed; Region: era; PRK00089 458817003238 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 458817003239 G1 box; other site 458817003240 GTP/Mg2+ binding site [chemical binding]; other site 458817003241 Switch I region; other site 458817003242 G2 box; other site 458817003243 Switch II region; other site 458817003244 G3 box; other site 458817003245 G4 box; other site 458817003246 G5 box; other site 458817003247 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 458817003248 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 458817003249 Recombination protein O N terminal; Region: RecO_N; cl15812 458817003250 Recombination protein O C terminal; Region: RecO_C; pfam02565 458817003251 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 458817003252 active site 458817003253 hydrophilic channel; other site 458817003254 dimerization interface [polypeptide binding]; other site 458817003255 catalytic residues [active] 458817003256 active site lid [active] 458817003257 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 458817003258 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 458817003259 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 458817003260 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 458817003261 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 458817003262 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 458817003263 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 458817003264 Protein of unknown function (DUF962); Region: DUF962; cl01879 458817003265 Domain of unknown function DUF21; Region: DUF21; pfam01595 458817003266 hypothetical protein; Provisional; Region: PRK11573 458817003267 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 458817003268 Transporter associated domain; Region: CorC_HlyC; cl08393 458817003269 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 458817003270 signal recognition particle protein; Provisional; Region: PRK10867 458817003271 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 458817003272 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 458817003273 P loop; other site 458817003274 GTP binding site [chemical binding]; other site 458817003275 Signal peptide binding domain; Region: SRP_SPB; pfam02978 458817003276 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 458817003277 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 458817003278 RimM N-terminal domain; Region: RimM; pfam01782 458817003279 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 458817003280 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 458817003281 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 458817003282 NeuB family; Region: NeuB; cl00496 458817003283 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 458817003284 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 458817003285 Chorismate mutase type II; Region: CM_2; cl00693 458817003286 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817003287 hybrid cluster protein; Provisional; Region: PRK05290 458817003288 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 458817003289 ACS interaction site; other site 458817003290 CODH interaction site; other site 458817003291 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 458817003292 hybrid metal cluster; other site 458817003293 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 458817003294 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 458817003295 FAD binding pocket [chemical binding]; other site 458817003296 FAD binding motif [chemical binding]; other site 458817003297 phosphate binding motif [ion binding]; other site 458817003298 beta-alpha-beta structure motif; other site 458817003299 NAD binding pocket [chemical binding]; other site 458817003300 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 458817003301 catalytic loop [active] 458817003302 iron binding site [ion binding]; other site 458817003303 Predicted membrane protein [Function unknown]; Region: COG3671 458817003304 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 458817003305 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 458817003306 Chorismate mutase type II; Region: CM_2; cl00693 458817003307 Prephenate dehydratase; Region: PDT; pfam00800 458817003308 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 458817003309 putative L-Phe binding site [chemical binding]; other site 458817003310 NeuB family; Region: NeuB; cl00496 458817003311 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 458817003312 30S subunit binding site; other site 458817003313 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 458817003314 Cytochrome C'; Region: Cytochrom_C_2; cl01610 458817003315 Helix-turn-helix domains; Region: HTH; cl00088 458817003316 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 458817003317 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 458817003318 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 458817003319 putative catalytic residues [active] 458817003320 putative nucleotide binding site [chemical binding]; other site 458817003321 putative aspartate binding site [chemical binding]; other site 458817003322 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 458817003323 dimer interface [polypeptide binding]; other site 458817003324 putative threonine allosteric regulatory site; other site 458817003325 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 458817003326 putative threonine allosteric regulatory site; other site 458817003327 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817003328 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 458817003329 homoserine kinase; Provisional; Region: PRK01212 458817003330 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 458817003331 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 458817003332 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 458817003333 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458817003334 catalytic residue [active] 458817003335 endonuclease IV; Provisional; Region: PRK01060 458817003336 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 458817003337 DNA interaction; other site 458817003338 Metal-binding active site; metal-binding site 458817003339 AP (apurinic/apyrimidinic) site pocket; other site 458817003340 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 458817003341 Protein of unknown function (DUF3545); Region: DUF3545; pfam12065 458817003342 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 458817003343 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 458817003344 active site 458817003345 dimer interface [polypeptide binding]; other site 458817003346 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 458817003347 dimer interface [polypeptide binding]; other site 458817003348 active site 458817003349 transaldolase-like protein; Provisional; Region: PTZ00411 458817003350 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 458817003351 active site 458817003352 dimer interface [polypeptide binding]; other site 458817003353 catalytic residue [active] 458817003354 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 458817003355 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 458817003356 ligand binding site [chemical binding]; other site 458817003357 putative phosphoketolase; Provisional; Region: PRK05261 458817003358 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 458817003359 TPP-binding site; other site 458817003360 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 458817003361 XFP C-terminal domain; Region: XFP_C; pfam09363 458817003362 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 458817003363 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 458817003364 Protein of unknown function (DUF328); Region: DUF328; cl01143 458817003365 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 458817003366 dimerization interface [polypeptide binding]; other site 458817003367 putative DNA binding site [nucleotide binding]; other site 458817003368 putative Zn2+ binding site [ion binding]; other site 458817003369 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 458817003370 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 458817003371 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 458817003372 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 458817003373 active site 458817003374 Riboflavin kinase; Region: Flavokinase; cl03312 458817003375 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 458817003376 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 458817003377 active site 458817003378 HIGH motif; other site 458817003379 nucleotide binding site [chemical binding]; other site 458817003380 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 458817003381 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 458817003382 active site 458817003383 KMSKS motif; other site 458817003384 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 458817003385 tRNA binding surface [nucleotide binding]; other site 458817003386 anticodon binding site; other site 458817003387 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 458817003388 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 458817003389 lipoprotein signal peptidase; Provisional; Region: PRK14787 458817003390 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 458817003391 LytB protein; Region: LYTB; cl00507 458817003392 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 458817003393 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 458817003394 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 458817003395 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 458817003396 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 458817003397 PilX N-terminal; Region: PilX_N; pfam14341 458817003398 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 458817003399 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 458817003400 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 458817003401 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 458817003402 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 458817003403 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 458817003404 Type II transport protein GspH; Region: GspH; pfam12019 458817003405 general secretion pathway protein H; Region: typeII_sec_gspH; TIGR01708 458817003406 Type II transport protein GspH; Region: GspH; pfam12019 458817003407 Nitrogen regulatory protein P-II; Region: P-II; cl00412 458817003408 Nitrogen regulatory protein P-II; Region: P-II; smart00938 458817003409 Transcriptional regulators [Transcription]; Region: PurR; COG1609 458817003410 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 458817003411 DNA binding site [nucleotide binding] 458817003412 domain linker motif; other site 458817003413 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 458817003414 putative dimerization interface [polypeptide binding]; other site 458817003415 putative ligand binding site [chemical binding]; other site 458817003416 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 458817003417 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 458817003418 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 458817003419 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817003420 SapC; Region: SapC; pfam07277 458817003421 Putative carbohydrate binding domain; Region: CHB_HEX; cl03918 458817003422 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 458817003423 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 458817003424 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 458817003425 active site 458817003426 C-terminal Early set domain associated with the catalytic domain of chitobiase (also called N-acetylglucosaminidase); Region: E_set_Chitobiase_C; cd02847 458817003427 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 458817003428 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 458817003429 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 458817003430 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 458817003431 active site 458817003432 dimer interface [polypeptide binding]; other site 458817003433 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 458817003434 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 458817003435 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 458817003436 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 458817003437 adenine DNA glycosylase; Provisional; Region: PRK10880 458817003438 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 458817003439 minor groove reading motif; other site 458817003440 helix-hairpin-helix signature motif; other site 458817003441 substrate binding pocket [chemical binding]; other site 458817003442 active site 458817003443 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 458817003444 DNA binding and oxoG recognition site [nucleotide binding] 458817003445 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; cl15754 458817003446 Methyltransferase domain; Region: Methyltransf_31; pfam13847 458817003447 Protein with unknown function (DUF469); Region: DUF469; cl01237 458817003448 Glutaminase; Region: Glutaminase; cl00907 458817003449 Protein of unknown function (DUF2884); Region: DUF2884; cl08135 458817003450 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817003451 Helix-turn-helix domains; Region: HTH; cl00088 458817003452 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 458817003453 putative effector binding pocket; other site 458817003454 dimerization interface [polypeptide binding]; other site 458817003455 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_2; cd09320 458817003456 gating phenylalanine in ion channel; other site 458817003457 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817003458 Helix-turn-helix domains; Region: HTH; cl00088 458817003459 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 458817003460 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 458817003461 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 458817003462 HemN family oxidoreductase; Provisional; Region: PRK05660 458817003463 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 458817003464 FeS/SAM binding site; other site 458817003465 HemN C-terminal domain; Region: HemN_C; pfam06969 458817003466 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 458817003467 active site 458817003468 dimerization interface [polypeptide binding]; other site 458817003469 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 458817003470 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 458817003471 YGGT family; Region: YGGT; cl00508 458817003472 YGGT family; Region: YGGT; cl00508 458817003473 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817003474 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 458817003475 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 458817003476 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 458817003477 catalytic residue [active] 458817003478 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 458817003479 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 458817003480 Walker A motif; other site 458817003481 ATP binding site [chemical binding]; other site 458817003482 Walker B motif; other site 458817003483 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 458817003484 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817003485 ATP binding site [chemical binding]; other site 458817003486 Walker B motif; other site 458817003487 ferrochelatase; Reviewed; Region: hemH; PRK00035 458817003488 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 458817003489 C-terminal domain interface [polypeptide binding]; other site 458817003490 active site 458817003491 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 458817003492 active site 458817003493 N-terminal domain interface [polypeptide binding]; other site 458817003494 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 458817003495 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 458817003496 translation initiation factor Sui1; Validated; Region: PRK06824 458817003497 The SUI1/eIF1 (eukaryotic initiation factor 1) fold is found in eukaryotes, archaea, and some bacteria and is thought to play an important role in accurate initiator codon recognition during translation initiation. This fold, which includes two...; Region: SUI1_eIF1; cl00229 458817003498 Predicted RNA interaction site [nucleotide binding]; other site 458817003499 putative binding site; other site 458817003500 Mutations affecting start-site selection; other site 458817003501 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 458817003502 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817003503 Helix-turn-helix domains; Region: HTH; cl00088 458817003504 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 458817003505 dimerization interface [polypeptide binding]; other site 458817003506 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 458817003507 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 458817003508 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 458817003509 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 458817003510 N-terminal plug; other site 458817003511 ligand-binding site [chemical binding]; other site 458817003512 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 458817003513 ligand binding site [chemical binding]; other site 458817003514 mechanosensitive channel MscS; Provisional; Region: PRK10334 458817003515 Conserved TM helix; Region: TM_helix; pfam05552 458817003516 Mechanosensitive ion channel; Region: MS_channel; pfam00924 458817003517 Predicted membrane protein [Function unknown]; Region: COG2860 458817003518 UPF0126 domain; Region: UPF0126; pfam03458 458817003519 UPF0126 domain; Region: UPF0126; pfam03458 458817003520 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 458817003521 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 458817003522 tetramer interface [polypeptide binding]; other site 458817003523 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817003524 catalytic residue [active] 458817003525 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 458817003526 Helix-turn-helix domains; Region: HTH; cl00088 458817003527 Winged helix-turn helix; Region: HTH_29; pfam13551 458817003528 Helix-turn-helix domains; Region: HTH; cl00088 458817003529 Integrase core domain; Region: rve; cl01316 458817003530 Helix-turn-helix domains; Region: HTH; cl00088 458817003531 Winged helix-turn helix; Region: HTH_29; pfam13551 458817003532 Helix-turn-helix domains; Region: HTH; cl00088 458817003533 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 458817003534 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817003535 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458817003536 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817003537 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817003538 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817003539 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 458817003540 Protein export membrane protein; Region: SecD_SecF; cl14618 458817003541 putative alcohol dehydrogenase; Provisional; Region: PRK09860 458817003542 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 458817003543 dimer interface [polypeptide binding]; other site 458817003544 active site 458817003545 metal binding site [ion binding]; metal-binding site 458817003546 LabA_like proteins; Region: LabA; cd10911 458817003547 putative metal binding site [ion binding]; other site 458817003548 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 458817003549 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817003550 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817003551 Shewanella-like phosphatases, metallophosphatase domain; Region: MPP_Shelphs; cd07425 458817003552 active site 458817003553 metal binding site [ion binding]; metal-binding site 458817003554 Acyltransferase family; Region: Acyl_transf_3; pfam01757 458817003555 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 458817003556 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 458817003557 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 458817003558 ABC transporter; Region: ABC_tran_2; pfam12848 458817003559 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 458817003560 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 458817003561 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 458817003562 dimer interface [polypeptide binding]; other site 458817003563 glycine-pyridoxal phosphate binding site [chemical binding]; other site 458817003564 active site 458817003565 folate binding site [chemical binding]; other site 458817003566 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 458817003567 ATP cone domain; Region: ATP-cone; pfam03477 458817003568 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 458817003569 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 458817003570 catalytic motif [active] 458817003571 Zn binding site [ion binding]; other site 458817003572 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 458817003573 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 458817003574 Lumazine binding domain; Region: Lum_binding; pfam00677 458817003575 Lumazine binding domain; Region: Lum_binding; pfam00677 458817003576 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 458817003577 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 458817003578 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cl00522 458817003579 dimerization interface [polypeptide binding]; other site 458817003580 active site 458817003581 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 458817003582 homopentamer interface [polypeptide binding]; other site 458817003583 active site 458817003584 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 458817003585 putative RNA binding site [nucleotide binding]; other site 458817003586 thiamine monophosphate kinase; Provisional; Region: PRK05731 458817003587 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 458817003588 ATP binding site [chemical binding]; other site 458817003589 dimerization interface [polypeptide binding]; other site 458817003590 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 458817003591 tetramer interfaces [polypeptide binding]; other site 458817003592 binuclear metal-binding site [ion binding]; other site 458817003593 recombination and repair protein; Provisional; Region: PRK10869 458817003594 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 458817003595 Walker A/P-loop; other site 458817003596 ATP binding site [chemical binding]; other site 458817003597 Q-loop/lid; other site 458817003598 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 458817003599 ABC transporter signature motif; other site 458817003600 Walker B; other site 458817003601 D-loop; other site 458817003602 H-loop/switch region; other site 458817003603 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817003604 Helix-turn-helix domains; Region: HTH; cl00088 458817003605 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 458817003606 putative effector binding pocket; other site 458817003607 dimerization interface [polypeptide binding]; other site 458817003608 Protein of unknown function (DUF416); Region: DUF416; cl01166 458817003609 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 458817003610 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 458817003611 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 458817003612 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 458817003613 dimer interface [polypeptide binding]; other site 458817003614 phosphorylation site [posttranslational modification] 458817003615 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 458817003616 ATP binding site [chemical binding]; other site 458817003617 Mg2+ binding site [ion binding]; other site 458817003618 G-X-G motif; other site 458817003619 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817003620 active site 458817003621 phosphorylation site [posttranslational modification] 458817003622 intermolecular recognition site; other site 458817003623 dimerization interface [polypeptide binding]; other site 458817003624 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 458817003625 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 458817003626 TRAM domain; Region: TRAM; cl01282 458817003627 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 458817003628 S-adenosylmethionine binding site [chemical binding]; other site 458817003629 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 458817003630 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 458817003631 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 458817003632 synthetase active site [active] 458817003633 NTP binding site [chemical binding]; other site 458817003634 metal binding site [ion binding]; metal-binding site 458817003635 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 458817003636 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 458817003637 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 458817003638 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 458817003639 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 458817003640 CTP synthetase; Validated; Region: pyrG; PRK05380 458817003641 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 458817003642 Catalytic site [active] 458817003643 active site 458817003644 UTP binding site [chemical binding]; other site 458817003645 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 458817003646 active site 458817003647 putative oxyanion hole; other site 458817003648 catalytic triad [active] 458817003649 enolase; Provisional; Region: eno; PRK00077 458817003650 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 458817003651 dimer interface [polypeptide binding]; other site 458817003652 metal binding site [ion binding]; metal-binding site 458817003653 substrate binding pocket [chemical binding]; other site 458817003654 Septum formation initiator; Region: DivIC; cl11433 458817003655 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 458817003656 substrate binding site; other site 458817003657 dimer interface; other site 458817003658 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 458817003659 homotrimer interaction site [polypeptide binding]; other site 458817003660 zinc binding site [ion binding]; other site 458817003661 CDP-binding sites; other site 458817003662 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 458817003663 PseudoU_synth_EcTruD: Pseudouridine synthase, TruD family. This group consists of bacterial pseudouridine synthases similar to Escherichia coli TruD. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_EcTruD; cd02575 458817003664 Permutation of conserved domain; other site 458817003665 active site 458817003666 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 458817003667 Survival protein SurE; Region: SurE; cl00448 458817003668 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 458817003669 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 458817003670 S-adenosylmethionine binding site [chemical binding]; other site 458817003671 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 458817003672 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 458817003673 putative peptidoglycan binding site; other site 458817003674 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 458817003675 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 458817003676 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 458817003677 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 458817003678 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 458817003679 DNA binding residues [nucleotide binding] 458817003680 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 458817003681 MutS domain I; Region: MutS_I; pfam01624 458817003682 MutS domain II; Region: MutS_II; pfam05188 458817003683 MutS family domain IV; Region: MutS_IV; pfam05190 458817003684 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 458817003685 Walker A/P-loop; other site 458817003686 ATP binding site [chemical binding]; other site 458817003687 Q-loop/lid; other site 458817003688 ABC transporter signature motif; other site 458817003689 Walker B; other site 458817003690 D-loop; other site 458817003691 H-loop/switch region; other site 458817003692 recombinase A; Provisional; Region: recA; PRK09354 458817003693 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 458817003694 hexamer interface [polypeptide binding]; other site 458817003695 Walker A motif; other site 458817003696 ATP binding site [chemical binding]; other site 458817003697 Walker B motif; other site 458817003698 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 458817003699 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 458817003700 motif 1; other site 458817003701 active site 458817003702 motif 2; other site 458817003703 motif 3; other site 458817003704 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 458817003705 DHHA1 domain; Region: DHHA1; pfam02272 458817003706 Global regulator protein family; Region: CsrA; cl00670 458817003707 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; cl01458 458817003708 oxaloacetate decarboxylase; Provisional; Region: PRK14040 458817003709 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 458817003710 active site 458817003711 catalytic residues [active] 458817003712 metal binding site [ion binding]; metal-binding site 458817003713 homodimer binding site [polypeptide binding]; other site 458817003714 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 458817003715 carboxyltransferase (CT) interaction site; other site 458817003716 biotinylation site [posttranslational modification]; other site 458817003717 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 458817003718 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 458817003719 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 458817003720 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 458817003721 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 458817003722 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 458817003723 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 458817003724 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 458817003725 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 458817003726 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl15791 458817003727 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 458817003728 N-acetyl-D-glucosamine binding site [chemical binding]; other site 458817003729 catalytic residue [active] 458817003730 Cytochrome c/c1 heme lyase; Region: Cyto_heme_lyase; pfam01265 458817003731 GAF domain; Region: GAF_2; pfam13185 458817003732 GAF domain; Region: GAF; cl15785 458817003733 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817003734 metal binding site [ion binding]; metal-binding site 458817003735 active site 458817003736 I-site; other site 458817003737 AIR carboxylase; Region: AIRC; cl00310 458817003738 RNA polymerase sigma factor; Provisional; Region: PRK11924 458817003739 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 458817003740 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 458817003741 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 458817003742 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 458817003743 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 458817003744 structural tetrad; other site 458817003745 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 458817003746 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 458817003747 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 458817003748 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 458817003749 protein binding site [polypeptide binding]; other site 458817003750 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 458817003751 Domain interface; other site 458817003752 Peptide binding site; other site 458817003753 Active site tetrad [active] 458817003754 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 458817003755 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817003756 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817003757 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 458817003758 OsmC-like protein; Region: OsmC; cl00767 458817003759 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 458817003760 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 458817003761 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 458817003762 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 458817003763 30S subunit binding site; other site 458817003764 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 458817003765 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 458817003766 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817003767 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 458817003768 NnrS protein; Region: NnrS; cl01258 458817003769 Cytochrome c552; Region: Cytochrom_C552; pfam02335 458817003770 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 458817003771 Helix-turn-helix domain; Region: HTH_18; pfam12833 458817003772 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 458817003773 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 458817003774 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 458817003775 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 458817003776 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 458817003777 active site 458817003778 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 458817003779 GTPase RsgA; Reviewed; Region: PRK01889 458817003780 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 458817003781 GTPase/Zn-binding domain interface [polypeptide binding]; other site 458817003782 GTP/Mg2+ binding site [chemical binding]; other site 458817003783 G4 box; other site 458817003784 G5 box; other site 458817003785 G1 box; other site 458817003786 Switch I region; other site 458817003787 G2 box; other site 458817003788 G3 box; other site 458817003789 Switch II region; other site 458817003790 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 458817003791 Domain of unknown function (DUF333); Region: DUF333; pfam03891 458817003792 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 458817003793 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_5; cd04962 458817003794 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 458817003795 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 458817003796 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 458817003797 substrate binding pocket [chemical binding]; other site 458817003798 membrane-bound complex binding site; other site 458817003799 hinge residues; other site 458817003800 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; cl01409 458817003801 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 458817003802 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 458817003803 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 458817003804 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 458817003805 dimer interface [polypeptide binding]; other site 458817003806 FMN binding site [chemical binding]; other site 458817003807 NADPH bind site [chemical binding]; other site 458817003808 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 458817003809 substrate binding site [chemical binding]; other site 458817003810 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 458817003811 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 458817003812 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 458817003813 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 458817003814 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 458817003815 PhnA protein; Region: PhnA; pfam03831 458817003816 Cupin domain; Region: Cupin_2; cl09118 458817003817 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 458817003818 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 458817003819 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 458817003820 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 458817003821 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 458817003822 Protein of unknown function, DUF417; Region: DUF417; cl01162 458817003823 Winged helix-turn helix; Region: HTH_29; pfam13551 458817003824 Helix-turn-helix domains; Region: HTH; cl00088 458817003825 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 458817003826 Helix-turn-helix domains; Region: HTH; cl00088 458817003827 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 458817003828 dimerization interface [polypeptide binding]; other site 458817003829 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 458817003830 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817003831 metal binding site [ion binding]; metal-binding site 458817003832 active site 458817003833 I-site; other site 458817003834 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 458817003835 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 458817003836 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 458817003837 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 458817003838 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817003839 dimer interface [polypeptide binding]; other site 458817003840 putative CheW interface [polypeptide binding]; other site 458817003841 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 458817003842 NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]; Region: Lig; COG0272 458817003843 NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]; Region: Lig; COG0272 458817003844 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 458817003845 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 458817003846 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817003847 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 458817003848 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 458817003849 integrase; Provisional; Region: int; PHA02601 458817003850 Phage HP1 integrase, C-terminal catalytic domain. Bacteriophage HP1 and related integrases are found in eubacteria, plasmids and temperate bacteriophages of the P2 family. They belong to the DNA breaking-rejoining enzyme superfamily, which includes...; Region: HP1_INT_C; cd00797 458817003851 dimer interface [polypeptide binding]; other site 458817003852 Int/Topo IB signature motif; other site 458817003853 active site 458817003854 catalytic residues [active] 458817003855 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cl00038 458817003856 NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]; Region: Lig; COG0272 458817003857 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 458817003858 Phage regulatory protein CII (CP76); Region: Phage_CP76; pfam06892 458817003859 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 458817003860 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 458817003861 Src homology 3 domains; SH3 domains bind to proline-rich ligands with moderate affinity and selectivity, preferentially to PxxP motifs; they play a role in the regulation of enzymes by intramolecular interactions, changing the subcellular localization of...; Region: SH3; cl15350 458817003862 Phage-related protein [Function unknown]; Region: COG4695; cl01923 458817003863 phage portal protein, PBSX family; Region: portal_PBSX; TIGR01540 458817003864 terminase ATPase subunit; Provisional; Region: P; PHA02535 458817003865 Helix-turn-helix domains; Region: HTH; cl00088 458817003866 Phage Terminase; Region: Terminase_1; pfam03354 458817003867 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 458817003868 Phage major capsid protein, P2 family; Region: Phage_cap_P2; cl04947 458817003869 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 458817003870 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 458817003871 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 458817003872 Protein of unknown function (DUF2586); Region: DUF2586; pfam10758 458817003873 Protein of unknown function (DUF2597); Region: DUF2597; pfam10772 458817003874 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 458817003875 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 458817003876 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 458817003877 Protein of unknown function (DUF3154); Region: DUF3154; pfam11351 458817003878 Protein of unknown function (DUF2765); Region: DUF2765; pfam10963 458817003879 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 458817003880 Protein of unknown function (DUF2590); Region: DUF2590; pfam10761 458817003881 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 458817003882 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 458817003883 SmpB-tmRNA interface; other site 458817003884 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 458817003885 putative coenzyme Q binding site [chemical binding]; other site 458817003886 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 458817003887 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 458817003888 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 458817003889 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 458817003890 Subunit A of Class III extradiol dioxygenases; Region: Extradiol_Dioxygenase_3A_like; cl06673 458817003891 dimer interface [polypeptide binding]; other site 458817003892 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817003893 metal binding site [ion binding]; metal-binding site 458817003894 active site 458817003895 I-site; other site 458817003896 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 458817003897 malate synthase A; Region: malate_syn_A; TIGR01344 458817003898 active site 458817003899 HDOD domain; Region: HDOD; pfam08668 458817003900 GAF domain; Region: GAF; cl15785 458817003901 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 458817003902 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 458817003903 ParA-like protein; Provisional; Region: PHA02518 458817003904 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 458817003905 P-loop; other site 458817003906 Magnesium ion binding site [ion binding]; other site 458817003907 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 458817003908 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 458817003909 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458817003910 Coenzyme A binding pocket [chemical binding]; other site 458817003911 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 458817003912 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458817003913 Coenzyme A binding pocket [chemical binding]; other site 458817003914 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 458817003915 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 458817003916 active site 458817003917 metal binding site [ion binding]; metal-binding site 458817003918 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 458817003919 Domain of unknown function DUF21; Region: DUF21; pfam01595 458817003920 FOG: CBS domain [General function prediction only]; Region: COG0517 458817003921 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 458817003922 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 458817003923 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 458817003924 FeS/SAM binding site; other site 458817003925 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 458817003926 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 458817003927 binding surface 458817003928 TPR motif; other site 458817003929 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 458817003930 binding surface 458817003931 TPR motif; other site 458817003932 cytoskeletal protein RodZ; Provisional; Region: PRK10856 458817003933 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 458817003934 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 458817003935 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 458817003936 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 458817003937 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 458817003938 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 458817003939 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 458817003940 dimer interface [polypeptide binding]; other site 458817003941 motif 1; other site 458817003942 active site 458817003943 motif 2; other site 458817003944 motif 3; other site 458817003945 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 458817003946 anticodon binding site; other site 458817003947 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 458817003948 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 458817003949 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 458817003950 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 458817003951 Trp docking motif [polypeptide binding]; other site 458817003952 active site 458817003953 GTP-binding protein Der; Reviewed; Region: PRK00093 458817003954 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 458817003955 G1 box; other site 458817003956 GTP/Mg2+ binding site [chemical binding]; other site 458817003957 Switch I region; other site 458817003958 G2 box; other site 458817003959 Switch II region; other site 458817003960 G3 box; other site 458817003961 G4 box; other site 458817003962 G5 box; other site 458817003963 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 458817003964 G1 box; other site 458817003965 GTP/Mg2+ binding site [chemical binding]; other site 458817003966 Switch I region; other site 458817003967 G2 box; other site 458817003968 G3 box; other site 458817003969 Switch II region; other site 458817003970 G4 box; other site 458817003971 G5 box; other site 458817003972 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 458817003973 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 458817003974 xanthine permease; Region: pbuX; TIGR03173 458817003975 CHASE3 domain; Region: CHASE3; cl05000 458817003976 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 458817003977 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 458817003978 dimerization interface [polypeptide binding]; other site 458817003979 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 458817003980 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817003981 dimer interface [polypeptide binding]; other site 458817003982 putative CheW interface [polypeptide binding]; other site 458817003983 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 458817003984 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 458817003985 generic binding surface II; other site 458817003986 generic binding surface I; other site 458817003987 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 458817003988 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 458817003989 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 458817003990 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 458817003991 active site 458817003992 GMP synthase; Reviewed; Region: guaA; PRK00074 458817003993 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 458817003994 AMP/PPi binding site [chemical binding]; other site 458817003995 candidate oxyanion hole; other site 458817003996 catalytic triad [active] 458817003997 potential glutamine specificity residues [chemical binding]; other site 458817003998 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 458817003999 ATP Binding subdomain [chemical binding]; other site 458817004000 Ligand Binding sites [chemical binding]; other site 458817004001 Dimerization subdomain; other site 458817004002 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 458817004003 nucleoside/Zn binding site; other site 458817004004 dimer interface [polypeptide binding]; other site 458817004005 catalytic motif [active] 458817004006 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 458817004007 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 458817004008 substrate binding pocket [chemical binding]; other site 458817004009 membrane-bound complex binding site; other site 458817004010 hinge residues; other site 458817004011 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 458817004012 N-acetyl-D-glucosamine binding site [chemical binding]; other site 458817004013 catalytic residue [active] 458817004014 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 458817004015 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 458817004016 dimerization interface [polypeptide binding]; other site 458817004017 ATP binding site [chemical binding]; other site 458817004018 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 458817004019 dimerization interface [polypeptide binding]; other site 458817004020 ATP binding site [chemical binding]; other site 458817004021 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 458817004022 putative active site [active] 458817004023 catalytic triad [active] 458817004024 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 458817004025 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 458817004026 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 458817004027 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 458817004028 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 458817004029 Cache domain; Region: Cache_1; pfam02743 458817004030 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 458817004031 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817004032 dimer interface [polypeptide binding]; other site 458817004033 putative CheW interface [polypeptide binding]; other site 458817004034 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 458817004035 Protein export membrane protein; Region: SecD_SecF; cl14618 458817004036 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817004037 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817004038 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817004039 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 458817004040 Helix-turn-helix domains; Region: HTH; cl00088 458817004041 Protein of unknown function (DUF2947); Region: DUF2947; pfam11163 458817004042 Thiamin pyrophosphokinase, catalytic domain; Region: TPK_catalytic; cl09135 458817004043 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 458817004044 binding surface 458817004045 TPR motif; other site 458817004046 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 458817004047 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 458817004048 NAD(P) binding site [chemical binding]; other site 458817004049 homodimer interface [polypeptide binding]; other site 458817004050 substrate binding site [chemical binding]; other site 458817004051 active site 458817004052 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 458817004053 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 458817004054 inhibitor-cofactor binding pocket; inhibition site 458817004055 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817004056 catalytic residue [active] 458817004057 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 458817004058 active site 458817004059 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 458817004060 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 458817004061 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 458817004062 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 458817004063 S-adenosylmethionine binding site [chemical binding]; other site 458817004064 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 458817004065 active site 458817004066 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 458817004067 S-adenosylmethionine binding site [chemical binding]; other site 458817004068 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 458817004069 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 458817004070 TPP-binding site; other site 458817004071 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 458817004072 PYR/PP interface [polypeptide binding]; other site 458817004073 dimer interface [polypeptide binding]; other site 458817004074 TPP binding site [chemical binding]; other site 458817004075 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 458817004076 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 458817004077 classical (c) SDRs; Region: SDR_c; cd05233 458817004078 NAD(P) binding site [chemical binding]; other site 458817004079 active site 458817004080 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 458817004081 ATP-grasp domain; Region: ATP-grasp_4; cl03087 458817004082 NeuB family; Region: NeuB; cl00496 458817004083 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817004084 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 458817004085 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 458817004086 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 458817004087 Helix-turn-helix domain; Region: HTH_18; pfam12833 458817004088 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 458817004089 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 458817004090 4Fe-4S binding domain; Region: Fer4; cl02805 458817004091 4Fe-4S binding domain; Region: Fer4; cl02805 458817004092 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 458817004093 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 458817004094 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 458817004095 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 458817004096 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 458817004097 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 458817004098 FeS/SAM binding site; other site 458817004099 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 458817004100 biotin synthase; Provisional; Region: PRK07094 458817004101 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 458817004102 FeS/SAM binding site; other site 458817004103 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 458817004104 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 458817004105 G1 box; other site 458817004106 GTP/Mg2+ binding site [chemical binding]; other site 458817004107 Switch I region; other site 458817004108 G2 box; other site 458817004109 Switch II region; other site 458817004110 G3 box; other site 458817004111 G4 box; other site 458817004112 G5 box; other site 458817004113 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 458817004114 Superfamily II helicase [General function prediction only]; Region: COG1204 458817004115 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 458817004116 ATP binding site [chemical binding]; other site 458817004117 putative Mg++ binding site [ion binding]; other site 458817004118 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817004119 LPP20 lipoprotein; Region: LPP20; cl15824 458817004120 FlgN protein; Region: FlgN; cl09176 458817004121 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 458817004122 SAF domain; Region: SAF; cl00555 458817004123 SAF-like; Region: SAF_2; pfam13144 458817004124 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 458817004125 Response regulator receiver domain; Region: Response_reg; pfam00072 458817004126 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817004127 active site 458817004128 phosphorylation site [posttranslational modification] 458817004129 intermolecular recognition site; other site 458817004130 dimerization interface [polypeptide binding]; other site 458817004131 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 458817004132 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 458817004133 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817004134 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12625 458817004135 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 458817004136 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12631 458817004137 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 458817004138 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 458817004139 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 458817004140 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 458817004141 FlgD Ig-like domain; Region: FlgD_ig; cl15790 458817004142 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 458817004143 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 458817004144 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 458817004145 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 458817004146 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 458817004147 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 458817004148 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 458817004149 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 458817004150 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 458817004151 Flagellar L-ring protein; Region: FlgH; cl00905 458817004152 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 458817004153 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 458817004154 Rod binding protein; Region: Rod-binding; cl01626 458817004155 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12713 458817004156 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 458817004157 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08871 458817004158 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 458817004159 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 458817004160 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 458817004161 flagellin; Provisional; Region: PRK12802 458817004162 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 458817004163 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 458817004164 flagellin; Provisional; Region: PRK12802 458817004165 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 458817004166 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 458817004167 FlaG protein; Region: FlaG; cl00591 458817004168 flagellar capping protein; Reviewed; Region: fliD; PRK08032 458817004169 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 458817004170 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 458817004171 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 458817004172 Flagellar protein FliS; Region: FliS; cl00654 458817004173 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 458817004174 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 458817004175 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 458817004176 Walker A motif; other site 458817004177 ATP binding site [chemical binding]; other site 458817004178 Walker B motif; other site 458817004179 arginine finger; other site 458817004180 Helix-turn-helix domains; Region: HTH; cl00088 458817004181 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 458817004182 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 458817004183 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 458817004184 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 458817004185 ATP binding site [chemical binding]; other site 458817004186 Mg2+ binding site [ion binding]; other site 458817004187 G-X-G motif; other site 458817004188 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 458817004189 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817004190 active site 458817004191 phosphorylation site [posttranslational modification] 458817004192 intermolecular recognition site; other site 458817004193 dimerization interface [polypeptide binding]; other site 458817004194 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 458817004195 Walker A motif; other site 458817004196 ATP binding site [chemical binding]; other site 458817004197 Walker B motif; other site 458817004198 arginine finger; other site 458817004199 Helix-turn-helix domains; Region: HTH; cl00088 458817004200 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 458817004201 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 458817004202 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 458817004203 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 458817004204 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 458817004205 MgtE intracellular N domain; Region: MgtE_N; cl15244 458817004206 FliG C-terminal domain; Region: FliG_C; pfam01706 458817004207 flagellar assembly protein H; Validated; Region: fliH; PRK05687 458817004208 Flagellar assembly protein FliH; Region: FliH; pfam02108 458817004209 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08972 458817004210 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 458817004211 Walker A motif/ATP binding site; other site 458817004212 Walker B motif; other site 458817004213 flagellar biosynthesis chaperone; Validated; Region: fliJ; cl09161 458817004214 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 458817004215 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 458817004216 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 458817004217 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 458817004218 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 458817004219 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 458817004220 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 458817004221 FliP family; Region: FliP; cl00593 458817004222 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 458817004223 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 458817004224 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 458817004225 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 458817004226 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 458817004227 FHIPEP family; Region: FHIPEP; pfam00771 458817004228 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 458817004229 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817004230 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817004231 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 458817004232 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 458817004233 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 458817004234 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 458817004235 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 458817004236 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 458817004237 DNA binding residues [nucleotide binding] 458817004238 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 458817004239 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817004240 active site 458817004241 phosphorylation site [posttranslational modification] 458817004242 intermolecular recognition site; other site 458817004243 dimerization interface [polypeptide binding]; other site 458817004244 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 458817004245 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 458817004246 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 458817004247 putative binding surface; other site 458817004248 active site 458817004249 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 458817004250 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 458817004251 ATP binding site [chemical binding]; other site 458817004252 Mg2+ binding site [ion binding]; other site 458817004253 G-X-G motif; other site 458817004254 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 458817004255 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 458817004256 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817004257 active site 458817004258 phosphorylation site [posttranslational modification] 458817004259 intermolecular recognition site; other site 458817004260 dimerization interface [polypeptide binding]; other site 458817004261 CheB methylesterase; Region: CheB_methylest; pfam01339 458817004262 Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit [DNA replication, recombination, and repair]; Region: GyrB; COG0187 458817004263 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 458817004264 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 458817004265 P-loop; other site 458817004266 Magnesium ion binding site [ion binding]; other site 458817004267 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 458817004268 Magnesium ion binding site [ion binding]; other site 458817004269 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 458817004270 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 458817004271 putative CheA interaction surface; other site 458817004272 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 458817004273 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 458817004274 VacJ like lipoprotein; Region: VacJ; cl01073 458817004275 Response regulator receiver domain; Region: Response_reg; pfam00072 458817004276 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817004277 active site 458817004278 phosphorylation site [posttranslational modification] 458817004279 intermolecular recognition site; other site 458817004280 dimerization interface [polypeptide binding]; other site 458817004281 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 458817004282 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 458817004283 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 458817004284 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 458817004285 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 458817004286 transcriptional activator RfaH; Region: RfaH; TIGR01955 458817004287 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 458817004288 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 458817004289 SLBB domain; Region: SLBB; pfam10531 458817004290 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 458817004291 SLBB domain; Region: SLBB; pfam10531 458817004292 SLBB domain; Region: SLBB; pfam10531 458817004293 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 458817004294 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 458817004295 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 458817004296 Chain length determinant protein; Region: Wzz; cl15801 458817004297 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 458817004298 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 458817004299 NAD binding site [chemical binding]; other site 458817004300 substrate binding site [chemical binding]; other site 458817004301 homodimer interface [polypeptide binding]; other site 458817004302 active site 458817004303 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 458817004304 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 458817004305 substrate binding site; other site 458817004306 tetramer interface; other site 458817004307 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 458817004308 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 458817004309 NADP binding site [chemical binding]; other site 458817004310 active site 458817004311 putative substrate binding site [chemical binding]; other site 458817004312 Cupin domain; Region: Cupin_2; cl09118 458817004313 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 458817004314 MatE; Region: MatE; cl10513 458817004315 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 458817004316 active site 458817004317 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 458817004318 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 458817004319 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 458817004320 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 458817004321 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 458817004322 active site 458817004323 O-Antigen ligase; Region: Wzy_C; cl04850 458817004324 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 458817004325 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 458817004326 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_6; cd04955 458817004327 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 458817004328 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 458817004329 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 458817004330 Mg++ binding site [ion binding]; other site 458817004331 putative catalytic motif [active] 458817004332 substrate binding site [chemical binding]; other site 458817004333 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 458817004334 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 458817004335 Mg++ binding site [ion binding]; other site 458817004336 putative catalytic motif [active] 458817004337 substrate binding site [chemical binding]; other site 458817004338 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 458817004339 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 458817004340 Beta-Casp domain; Region: Beta-Casp; cl12567 458817004341 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 458817004342 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 458817004343 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817004344 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 458817004345 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817004346 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 458817004347 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 458817004348 putative NAD(P) binding site [chemical binding]; other site 458817004349 active site 458817004350 putative substrate binding site [chemical binding]; other site 458817004351 Cupin domain; Region: Cupin_2; cl09118 458817004352 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 458817004353 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 458817004354 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 458817004355 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 458817004356 active site 458817004357 nucleotide binding site [chemical binding]; other site 458817004358 HIGH motif; other site 458817004359 KMSKS motif; other site 458817004360 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 458817004361 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 458817004362 active site 458817004363 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 458817004364 putative trimer interface [polypeptide binding]; other site 458817004365 putative CoA binding site [chemical binding]; other site 458817004366 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 458817004367 Bacterial sugar transferase; Region: Bac_transf; cl00939 458817004368 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 458817004369 active site 458817004370 MatE; Region: MatE; cl10513 458817004371 O-Antigen ligase; Region: Wzy_C; cl04850 458817004372 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 458817004373 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 458817004374 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 458817004375 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 458817004376 anti sigma factor interaction site; other site 458817004377 regulatory phosphorylation site [posttranslational modification]; other site 458817004378 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 458817004379 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 458817004380 Response regulator receiver domain; Region: Response_reg; pfam00072 458817004381 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817004382 active site 458817004383 phosphorylation site [posttranslational modification] 458817004384 intermolecular recognition site; other site 458817004385 dimerization interface [polypeptide binding]; other site 458817004386 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 458817004387 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 458817004388 NMT1-like family; Region: NMT1_2; cl15260 458817004389 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 458817004390 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 458817004391 PAS domain S-box; Region: sensory_box; TIGR00229 458817004392 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 458817004393 putative active site [active] 458817004394 heme pocket [chemical binding]; other site 458817004395 PAS domain S-box; Region: sensory_box; TIGR00229 458817004396 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 458817004397 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 458817004398 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 458817004399 dimer interface [polypeptide binding]; other site 458817004400 phosphorylation site [posttranslational modification] 458817004401 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 458817004402 ATP binding site [chemical binding]; other site 458817004403 Mg2+ binding site [ion binding]; other site 458817004404 G-X-G motif; other site 458817004405 Response regulator receiver domain; Region: Response_reg; pfam00072 458817004406 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817004407 active site 458817004408 phosphorylation site [posttranslational modification] 458817004409 intermolecular recognition site; other site 458817004410 dimerization interface [polypeptide binding]; other site 458817004411 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 458817004412 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 458817004413 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817004414 active site 458817004415 phosphorylation site [posttranslational modification] 458817004416 intermolecular recognition site; other site 458817004417 dimerization interface [polypeptide binding]; other site 458817004418 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 458817004419 Walker A motif; other site 458817004420 ATP binding site [chemical binding]; other site 458817004421 Walker B motif; other site 458817004422 arginine finger; other site 458817004423 Helix-turn-helix domains; Region: HTH; cl00088 458817004424 putative hydrolase; Validated; Region: PRK09248 458817004425 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 458817004426 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 458817004427 NADP binding site [chemical binding]; other site 458817004428 active site 458817004429 putative substrate binding site [chemical binding]; other site 458817004430 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 458817004431 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 458817004432 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 458817004433 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 458817004434 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 458817004435 active site 458817004436 fructokinase; Reviewed; Region: PRK09557 458817004437 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 458817004438 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 458817004439 putative active site [active] 458817004440 Protein of unknown function (DUF2982); Region: DUF2982; pfam11201 458817004441 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 458817004442 ferredoxin-type protein; Provisional; Region: PRK10194 458817004443 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 458817004444 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 458817004445 UDP-glucose 4-epimerase; Region: PLN02240 458817004446 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 458817004447 NAD binding site [chemical binding]; other site 458817004448 homodimer interface [polypeptide binding]; other site 458817004449 active site 458817004450 substrate binding site [chemical binding]; other site 458817004451 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 458817004452 active site 458817004453 tetramer interface; other site 458817004454 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 458817004455 cofactor binding site; other site 458817004456 metal binding site [ion binding]; metal-binding site 458817004457 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 458817004458 aromatic arch; other site 458817004459 DCoH dimer interaction site [polypeptide binding]; other site 458817004460 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 458817004461 DCoH tetramer interaction site [polypeptide binding]; other site 458817004462 substrate binding site [chemical binding]; other site 458817004463 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 458817004464 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 458817004465 putative aromatic amino acid binding site; other site 458817004466 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 458817004467 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 458817004468 Walker A motif; other site 458817004469 ATP binding site [chemical binding]; other site 458817004470 Walker B motif; other site 458817004471 arginine finger; other site 458817004472 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 458817004473 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 458817004474 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 458817004475 maleylacetoacetate isomerase; Region: maiA; TIGR01262 458817004476 C-terminal domain interface [polypeptide binding]; other site 458817004477 GSH binding site (G-site) [chemical binding]; other site 458817004478 putative dimer interface [polypeptide binding]; other site 458817004479 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 458817004480 dimer interface [polypeptide binding]; other site 458817004481 N-terminal domain interface [polypeptide binding]; other site 458817004482 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 458817004483 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817004484 Helix-turn-helix domains; Region: HTH; cl00088 458817004485 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 458817004486 dimerization interface [polypeptide binding]; other site 458817004487 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 458817004488 Major Facilitator Superfamily; Region: MFS_1; pfam07690 458817004489 putative substrate translocation pore; other site 458817004490 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 458817004491 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 458817004492 active site 458817004493 HIGH motif; other site 458817004494 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 458817004495 active site 458817004496 KMSKS motif; other site 458817004497 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 458817004498 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 458817004499 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 458817004500 Walker A/P-loop; other site 458817004501 ATP binding site [chemical binding]; other site 458817004502 Q-loop/lid; other site 458817004503 ABC transporter signature motif; other site 458817004504 Walker B; other site 458817004505 D-loop; other site 458817004506 H-loop/switch region; other site 458817004507 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 458817004508 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 458817004509 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 458817004510 AlkA N-terminal domain; Region: AlkA_N; cl05528 458817004511 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 458817004512 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 458817004513 minor groove reading motif; other site 458817004514 helix-hairpin-helix signature motif; other site 458817004515 substrate binding pocket [chemical binding]; other site 458817004516 active site 458817004517 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 458817004518 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 458817004519 DNA binding site [nucleotide binding] 458817004520 active site 458817004521 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 458817004522 DEAD-like helicases superfamily; Region: DEXDc; smart00487 458817004523 ATP binding site [chemical binding]; other site 458817004524 Mg++ binding site [ion binding]; other site 458817004525 motif III; other site 458817004526 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 458817004527 nucleotide binding region [chemical binding]; other site 458817004528 ATP-binding site [chemical binding]; other site 458817004529 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 458817004530 active site 458817004531 catalytic residues [active] 458817004532 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 458817004533 PLD-like domain; Region: PLDc_2; pfam13091 458817004534 putative active site [active] 458817004535 catalytic site [active] 458817004536 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 458817004537 PLD-like domain; Region: PLDc_2; pfam13091 458817004538 putative active site [active] 458817004539 catalytic site [active] 458817004540 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 458817004541 Response regulator receiver domain; Region: Response_reg; pfam00072 458817004542 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817004543 active site 458817004544 phosphorylation site [posttranslational modification] 458817004545 intermolecular recognition site; other site 458817004546 dimerization interface [polypeptide binding]; other site 458817004547 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 458817004548 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 458817004549 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 458817004550 active site 458817004551 Protein of unknown function, DUF479; Region: DUF479; cl01203 458817004552 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 458817004553 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 458817004554 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 458817004555 tRNA-guanine transglycosylases, various specificities; Region: tgt_general; TIGR00449 458817004556 Preprotein translocase subunit; Region: YajC; cl00806 458817004557 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 458817004558 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 458817004559 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 458817004560 Protein export membrane protein; Region: SecD_SecF; cl14618 458817004561 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 458817004562 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 458817004563 Protein export membrane protein; Region: SecD_SecF; cl14618 458817004564 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 458817004565 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 458817004566 active site residue [active] 458817004567 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 458817004568 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817004569 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 458817004570 YaeQ protein; Region: YaeQ; cl01913 458817004571 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 458817004572 Carbon starvation protein CstA; Region: CstA; pfam02554 458817004573 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 458817004574 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 458817004575 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817004576 active site 458817004577 phosphorylation site [posttranslational modification] 458817004578 intermolecular recognition site; other site 458817004579 dimerization interface [polypeptide binding]; other site 458817004580 LytTr DNA-binding domain; Region: LytTR; cl04498 458817004581 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 458817004582 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 458817004583 GAF domain; Region: GAF; cl15785 458817004584 Histidine kinase; Region: His_kinase; pfam06580 458817004585 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 458817004586 Protein of unknown function (DUF2492); Region: DUF2492; cl11278 458817004587 PilZ domain; Region: PilZ; cl01260 458817004588 Phosphate-starvation-inducible E; Region: PsiE; cl01264 458817004589 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 458817004590 active site 458817004591 dimerization interface [polypeptide binding]; other site 458817004592 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 458817004593 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 458817004594 serine O-acetyltransferase; Region: cysE; TIGR01172 458817004595 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 458817004596 trimer interface [polypeptide binding]; other site 458817004597 active site 458817004598 substrate binding site [chemical binding]; other site 458817004599 CoA binding site [chemical binding]; other site 458817004600 Helix-turn-helix domains; Region: HTH; cl00088 458817004601 Rrf2 family protein; Region: rrf2_super; TIGR00738 458817004602 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 458817004603 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 458817004604 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458817004605 catalytic residue [active] 458817004606 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 458817004607 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 458817004608 trimerization site [polypeptide binding]; other site 458817004609 active site 458817004610 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 458817004611 co-chaperone HscB; Provisional; Region: hscB; PRK05014 458817004612 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 458817004613 HSP70 interaction site [polypeptide binding]; other site 458817004614 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 458817004615 chaperone protein HscA; Provisional; Region: hscA; PRK05183 458817004616 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 458817004617 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 458817004618 catalytic loop [active] 458817004619 iron binding site [ion binding]; other site 458817004620 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 458817004621 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 458817004622 active site 458817004623 multimer interface [polypeptide binding]; other site 458817004624 TonB-dependent vitamin B12 receptor; Region: TonB-B12; TIGR01779 458817004625 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 458817004626 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 458817004627 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 458817004628 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 458817004629 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 458817004630 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 458817004631 FMN binding site [chemical binding]; other site 458817004632 active site 458817004633 catalytic residues [active] 458817004634 substrate binding site [chemical binding]; other site 458817004635 Protein of unknown function (DUF692); Region: DUF692; cl01263 458817004636 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 458817004637 Protein of unknown function (DUF454); Region: DUF454; cl01063 458817004638 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 458817004639 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 458817004640 active site 458817004641 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14949 458817004642 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 458817004643 Walker A motif; other site 458817004644 ATP binding site [chemical binding]; other site 458817004645 Walker B motif; other site 458817004646 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817004647 arginine finger; other site 458817004648 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 458817004649 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 458817004650 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 458817004651 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 458817004652 trimer interface [polypeptide binding]; other site 458817004653 active site 458817004654 substrate binding site [chemical binding]; other site 458817004655 CoA binding site [chemical binding]; other site 458817004656 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 458817004657 Sel1 repeat; Region: Sel1; cl02723 458817004658 recombination protein RecR; Reviewed; Region: recR; PRK00076 458817004659 RecR protein; Region: RecR; pfam02132 458817004660 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 458817004661 putative active site [active] 458817004662 putative metal-binding site [ion binding]; other site 458817004663 tetramer interface [polypeptide binding]; other site 458817004664 heat shock protein 90; Provisional; Region: PRK05218 458817004665 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 458817004666 ATP binding site [chemical binding]; other site 458817004667 Mg2+ binding site [ion binding]; other site 458817004668 G-X-G motif; other site 458817004669 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 458817004670 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 458817004671 adenylate kinase; Reviewed; Region: adk; PRK00279 458817004672 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 458817004673 AMP-binding site [chemical binding]; other site 458817004674 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 458817004675 ferrochelatase; Reviewed; Region: hemH; PRK00035 458817004676 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 458817004677 C-terminal domain interface [polypeptide binding]; other site 458817004678 active site 458817004679 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 458817004680 active site 458817004681 N-terminal domain interface [polypeptide binding]; other site 458817004682 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 458817004683 maltose O-acetyltransferase; Provisional; Region: PRK10092 458817004684 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 458817004685 active site 458817004686 substrate binding site [chemical binding]; other site 458817004687 trimer interface [polypeptide binding]; other site 458817004688 CoA binding site [chemical binding]; other site 458817004689 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 458817004690 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 458817004691 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 458817004692 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 458817004693 Succinylarginine dihydrolase; Region: AstB; cl01511 458817004694 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 458817004695 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 458817004696 active site 458817004697 interdomain interaction site; other site 458817004698 putative metal-binding site [ion binding]; other site 458817004699 nucleotide binding site [chemical binding]; other site 458817004700 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 458817004701 domain I; other site 458817004702 DNA binding groove [nucleotide binding] 458817004703 phosphate binding site [ion binding]; other site 458817004704 domain II; other site 458817004705 domain III; other site 458817004706 nucleotide binding site [chemical binding]; other site 458817004707 catalytic site [active] 458817004708 domain IV; other site 458817004709 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 458817004710 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 458817004711 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 458817004712 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 458817004713 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 458817004714 Helix-turn-helix domains; Region: HTH; cl00088 458817004715 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 458817004716 substrate binding site [chemical binding]; other site 458817004717 dimerization interface [polypeptide binding]; other site 458817004718 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 458817004719 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 458817004720 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 458817004721 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 458817004722 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 458817004723 Acylphosphatase; Region: Acylphosphatase; cl00551 458817004724 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 458817004725 transcription-repair coupling factor; Provisional; Region: PRK10689 458817004726 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 458817004727 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 458817004728 ATP binding site [chemical binding]; other site 458817004729 putative Mg++ binding site [ion binding]; other site 458817004730 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 458817004731 nucleotide binding region [chemical binding]; other site 458817004732 ATP-binding site [chemical binding]; other site 458817004733 TRCF domain; Region: TRCF; cl04088 458817004734 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 458817004735 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 458817004736 FtsX-like permease family; Region: FtsX; cl15850 458817004737 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 458817004738 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 458817004739 Walker A/P-loop; other site 458817004740 ATP binding site [chemical binding]; other site 458817004741 Q-loop/lid; other site 458817004742 ABC transporter signature motif; other site 458817004743 Walker B; other site 458817004744 D-loop; other site 458817004745 H-loop/switch region; other site 458817004746 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 458817004747 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 458817004748 FtsX-like permease family; Region: FtsX; cl15850 458817004749 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 458817004750 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 458817004751 putative active site [active] 458817004752 Zn binding site [ion binding]; other site 458817004753 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 458817004754 putative metal binding site [ion binding]; other site 458817004755 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 458817004756 Ion transport protein; Region: Ion_trans; pfam00520 458817004757 Ion channel; Region: Ion_trans_2; cl11596 458817004758 MatE; Region: MatE; cl10513 458817004759 MatE; Region: MatE; cl10513 458817004760 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 458817004761 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 458817004762 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 458817004763 Helix-turn-helix domains; Region: HTH; cl00088 458817004764 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817004765 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 458817004766 Protein export membrane protein; Region: SecD_SecF; cl14618 458817004767 Protein export membrane protein; Region: SecD_SecF; cl14618 458817004768 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 458817004769 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 458817004770 Integral membrane protein TerC family; Region: TerC; cl10468 458817004771 integron integrase; Region: integrase_gron; TIGR02249 458817004772 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 458817004773 Int/Topo IB signature motif; other site 458817004774 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 458817004775 ATP adenylyltransferase (5',5'''-P-1,P-4-tetraphosphate phosphorylase II) [Nucleotide transport and metabolism]; Region: APA2; COG4360 458817004776 ATP adenylyltransferase; Region: ATP_transf; pfam09830 458817004777 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 458817004778 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 458817004779 Ligand Binding Site [chemical binding]; other site 458817004780 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 458817004781 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 458817004782 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 458817004783 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 458817004784 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 458817004785 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 458817004786 dimer interface [polypeptide binding]; other site 458817004787 active site residues [active] 458817004788 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 458817004789 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 458817004790 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 458817004791 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 458817004792 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 458817004793 FMN-binding domain; Region: FMN_bind; cl01081 458817004794 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 458817004795 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 458817004796 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 458817004797 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 458817004798 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 458817004799 catalytic loop [active] 458817004800 iron binding site [ion binding]; other site 458817004801 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 458817004802 FAD binding pocket [chemical binding]; other site 458817004803 FAD binding motif [chemical binding]; other site 458817004804 phosphate binding motif [ion binding]; other site 458817004805 beta-alpha-beta structure motif; other site 458817004806 NAD binding pocket [chemical binding]; other site 458817004807 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 458817004808 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 458817004809 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 458817004810 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 458817004811 substrate binding site [chemical binding]; other site 458817004812 active site 458817004813 catalytic residues [active] 458817004814 heterodimer interface [polypeptide binding]; other site 458817004815 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 458817004816 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 458817004817 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817004818 catalytic residue [active] 458817004819 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 458817004820 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 458817004821 active site 458817004822 ribulose/triose binding site [chemical binding]; other site 458817004823 phosphate binding site [ion binding]; other site 458817004824 substrate (anthranilate) binding pocket [chemical binding]; other site 458817004825 product (indole) binding pocket [chemical binding]; other site 458817004826 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 458817004827 active site 458817004828 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 458817004829 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 458817004830 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 458817004831 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 458817004832 Glutamine amidotransferase class-I; Region: GATase; pfam00117 458817004833 glutamine binding [chemical binding]; other site 458817004834 catalytic triad [active] 458817004835 anthranilate synthase component I; Provisional; Region: PRK13564 458817004836 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 458817004837 chorismate binding enzyme; Region: Chorismate_bind; cl10555 458817004838 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 458817004839 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 458817004840 Nitrogen regulatory protein P-II; Region: P-II; smart00938 458817004841 FOG: CBS domain [General function prediction only]; Region: COG0517 458817004842 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_17; cd04630 458817004843 RecX family; Region: RecX; cl00936 458817004844 RecX family; Region: RecX; cl00936 458817004845 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 458817004846 substrate binding site [chemical binding]; other site 458817004847 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 458817004848 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 458817004849 conserved cys residue [active] 458817004850 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 458817004851 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 458817004852 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 458817004853 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 458817004854 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 458817004855 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 458817004856 catalytic loop [active] 458817004857 iron binding site [ion binding]; other site 458817004858 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 458817004859 FAD binding pocket [chemical binding]; other site 458817004860 FAD binding motif [chemical binding]; other site 458817004861 phosphate binding motif [ion binding]; other site 458817004862 beta-alpha-beta structure motif; other site 458817004863 NAD binding pocket [chemical binding]; other site 458817004864 Protein of unknown function (DUF445); Region: DUF445; pfam04286 458817004865 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 458817004866 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 458817004867 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 458817004868 putative substrate binding pocket [chemical binding]; other site 458817004869 trimer interface [polypeptide binding]; other site 458817004870 asparagine synthetase B; Provisional; Region: asnB; PRK09431 458817004871 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 458817004872 active site 458817004873 dimer interface [polypeptide binding]; other site 458817004874 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 458817004875 Ligand Binding Site [chemical binding]; other site 458817004876 Molecular Tunnel; other site 458817004877 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 458817004878 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 458817004879 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 458817004880 PA/protease or protease-like domain interface [polypeptide binding]; other site 458817004881 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 458817004882 metal binding site [ion binding]; metal-binding site 458817004883 UMP phosphatase; Provisional; Region: PRK10444 458817004884 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 458817004885 active site 458817004886 motif I; other site 458817004887 motif II; other site 458817004888 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 458817004889 Tetratricopeptide repeat; Region: TPR_12; pfam13424 458817004890 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 458817004891 TPR motif; other site 458817004892 binding surface 458817004893 Tetratricopeptide repeat; Region: TPR_12; pfam13424 458817004894 Tetratricopeptide repeat; Region: TPR_12; pfam13424 458817004895 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817004896 metal binding site [ion binding]; metal-binding site 458817004897 active site 458817004898 I-site; other site 458817004899 Uncharacterized conserved protein [Function unknown]; Region: COG5361 458817004900 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 458817004901 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 458817004902 voltage-gated potassium channel; Provisional; Region: PRK10537 458817004903 Ion channel; Region: Ion_trans_2; cl11596 458817004904 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817004905 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 458817004906 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 458817004907 active site 458817004908 substrate binding site [chemical binding]; other site 458817004909 cosubstrate binding site; other site 458817004910 catalytic site [active] 458817004911 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 458817004912 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 458817004913 dimerization interface [polypeptide binding]; other site 458817004914 putative ATP binding site [chemical binding]; other site 458817004915 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 458817004916 active site 458817004917 Predicted permease [General function prediction only]; Region: COG2056 458817004918 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 458817004919 peroxidase; Provisional; Region: PRK15000 458817004920 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 458817004921 dimer interface [polypeptide binding]; other site 458817004922 decamer (pentamer of dimers) interface [polypeptide binding]; other site 458817004923 catalytic triad [active] 458817004924 peroxidatic and resolving cysteines [active] 458817004925 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 458817004926 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 458817004927 active site 458817004928 catalytic site [active] 458817004929 substrate binding site [chemical binding]; other site 458817004930 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 458817004931 ligand binding site [chemical binding]; other site 458817004932 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 458817004933 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458817004934 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 458817004935 active site 458817004936 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 458817004937 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 458817004938 Gram-negative bacterial tonB protein; Region: TonB; cl10048 458817004939 translocation protein TolB; Provisional; Region: tolB; PRK04792 458817004940 TolB amino-terminal domain; Region: TolB_N; cl00639 458817004941 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 458817004942 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 458817004943 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 458817004944 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 458817004945 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 458817004946 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 458817004947 ligand binding site [chemical binding]; other site 458817004948 tol-pal system protein YbgF; Provisional; Region: PRK10803 458817004949 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 458817004950 GSH binding site [chemical binding]; other site 458817004951 catalytic residues [active] 458817004952 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 458817004953 ATP binding site [chemical binding]; other site 458817004954 putative Mg++ binding site [ion binding]; other site 458817004955 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 458817004956 nucleotide binding region [chemical binding]; other site 458817004957 ATP-binding site [chemical binding]; other site 458817004958 Double zinc ribbon; Region: DZR; pfam12773 458817004959 acetyl-CoA synthetase; Provisional; Region: PRK00174 458817004960 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 458817004961 AMP-binding enzyme; Region: AMP-binding; cl15778 458817004962 AMP-binding enzyme; Region: AMP-binding; cl15778 458817004963 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 458817004964 Sodium:solute symporter family; Region: SSF; cl00456 458817004965 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 458817004966 PAS fold; Region: PAS_7; pfam12860 458817004967 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 458817004968 dimer interface [polypeptide binding]; other site 458817004969 phosphorylation site [posttranslational modification] 458817004970 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 458817004971 ATP binding site [chemical binding]; other site 458817004972 Mg2+ binding site [ion binding]; other site 458817004973 G-X-G motif; other site 458817004974 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 458817004975 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 458817004976 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817004977 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 458817004978 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 458817004979 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817004980 active site 458817004981 phosphorylation site [posttranslational modification] 458817004982 intermolecular recognition site; other site 458817004983 dimerization interface [polypeptide binding]; other site 458817004984 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 458817004985 DNA binding residues [nucleotide binding] 458817004986 dimerization interface [polypeptide binding]; other site 458817004987 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 458817004988 NeuB family; Region: NeuB; cl00496 458817004989 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 458817004990 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 458817004991 phosphoenolpyruvate synthase; Validated; Region: PRK06464 458817004992 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 458817004993 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 458817004994 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 458817004995 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 458817004996 FAD binding domain; Region: FAD_binding_4; pfam01565 458817004997 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 458817004998 Protein of unknown function (DUF1285); Region: DUF1285; cl01571 458817004999 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 458817005000 Helix-turn-helix domains; Region: HTH; cl00088 458817005001 Helix-turn-helix domains; Region: HTH; cl00088 458817005002 Periplasmic lysozyme inhibitor, I-type (PliI) and similar proteins; Region: PliI_like; cd09632 458817005003 dimer interface [polypeptide binding]; other site 458817005004 putative inhibitory loop; other site 458817005005 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 458817005006 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 458817005007 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 458817005008 NAD binding site [chemical binding]; other site 458817005009 Phe binding site; other site 458817005010 adenylosuccinate lyase; Provisional; Region: PRK09285 458817005011 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 458817005012 tetramer interface [polypeptide binding]; other site 458817005013 active site 458817005014 Protein of unknown function (DUF489); Region: DUF489; cl01097 458817005015 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 458817005016 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 458817005017 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 458817005018 nudix motif; other site 458817005019 PseudoU_synth_RluE: Pseudouridine synthase, Escherichia coli RluE. This group is comprised of bacterial proteins similar to E. coli RluE. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines; Region: PseudoU_synth_RluE; cd02566 458817005020 pseudouridine synthase; Region: TIGR00093 458817005021 probable active site [active] 458817005022 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 458817005023 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 458817005024 DNA-binding site [nucleotide binding]; DNA binding site 458817005025 RNA-binding motif; other site 458817005026 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 458817005027 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 458817005028 Clp amino terminal domain; Region: Clp_N; pfam02861 458817005029 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 458817005030 Walker A motif; other site 458817005031 ATP binding site [chemical binding]; other site 458817005032 Walker B motif; other site 458817005033 arginine finger; other site 458817005034 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 458817005035 Walker A motif; other site 458817005036 ATP binding site [chemical binding]; other site 458817005037 Walker B motif; other site 458817005038 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 458817005039 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 458817005040 rRNA binding site [nucleotide binding]; other site 458817005041 predicted 30S ribosome binding site; other site 458817005042 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 458817005043 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 458817005044 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 458817005045 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 458817005046 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 458817005047 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458817005048 DNA-binding site [nucleotide binding]; DNA binding site 458817005049 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 458817005050 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817005051 homodimer interface [polypeptide binding]; other site 458817005052 catalytic residue [active] 458817005053 LysE type translocator; Region: LysE; cl00565 458817005054 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 458817005055 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 458817005056 putative GSH binding site (G-site) [chemical binding]; other site 458817005057 active site cysteine [active] 458817005058 putative C-terminal domain interface [polypeptide binding]; other site 458817005059 putative dimer interface [polypeptide binding]; other site 458817005060 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 458817005061 putative N-terminal domain interface [polypeptide binding]; other site 458817005062 putative dimer interface [polypeptide binding]; other site 458817005063 putative substrate binding pocket (H-site) [chemical binding]; other site 458817005064 putative chaperone; Provisional; Region: PRK11678 458817005065 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 458817005066 CreA protein; Region: CreA; pfam05981 458817005067 cystathionine beta-lyase; Provisional; Region: PRK09028 458817005068 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 458817005069 homodimer interface [polypeptide binding]; other site 458817005070 substrate-cofactor binding pocket; other site 458817005071 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817005072 catalytic residue [active] 458817005073 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 458817005074 DOMON-like type 9 carbohydrate binding module at the N-terminus of bacterial sensor histidine kinases; Region: CBM9_like_HisKa; cd09622 458817005075 putative ligand binding site [chemical binding]; other site 458817005076 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 458817005077 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 458817005078 dimer interface [polypeptide binding]; other site 458817005079 phosphorylation site [posttranslational modification] 458817005080 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 458817005081 ATP binding site [chemical binding]; other site 458817005082 Mg2+ binding site [ion binding]; other site 458817005083 G-X-G motif; other site 458817005084 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 458817005085 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817005086 active site 458817005087 phosphorylation site [posttranslational modification] 458817005088 intermolecular recognition site; other site 458817005089 dimerization interface [polypeptide binding]; other site 458817005090 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 458817005091 DNA binding site [nucleotide binding] 458817005092 proteobacterial sortase system OmpA family protein; Region: pdsO; TIGR03789 458817005093 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 458817005094 ligand binding site [chemical binding]; other site 458817005095 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 458817005096 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 458817005097 vWA_interalpha trypsin inhibitor (ITI): ITI is a glycoprotein composed of three polypeptides- two heavy chains and one light chain (bikunin). Bikunin confers the protease-inhibitor function while the heavy chains are involved in rendering stability to...; Region: vWA_interalpha_trypsin_inhibitor; cd01461 458817005098 metal ion-dependent adhesion site (MIDAS); other site 458817005099 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 458817005100 active site 458817005101 catalytic site [active] 458817005102 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817005103 metal binding site [ion binding]; metal-binding site 458817005104 active site 458817005105 I-site; other site 458817005106 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 458817005107 DNA ligase; Provisional; Region: PRK09125 458817005108 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 458817005109 DNA binding site [nucleotide binding] 458817005110 active site 458817005111 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 458817005112 DNA binding site [nucleotide binding] 458817005113 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 458817005114 dimer interface [polypeptide binding]; other site 458817005115 FMN binding site [chemical binding]; other site 458817005116 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 458817005117 DNA helicase, putative; Region: TIGR00376 458817005118 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817005119 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817005120 Family description; Region: UvrD_C_2; cl15862 458817005121 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 458817005122 putative active site [active] 458817005123 YecR-like lipoprotein; Region: YecR; cl10256 458817005124 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 458817005125 G1 box; other site 458817005126 GTP/Mg2+ binding site [chemical binding]; other site 458817005127 G2 box; other site 458817005128 Switch I region; other site 458817005129 G3 box; other site 458817005130 Switch II region; other site 458817005131 Domain of unknown function (DUF697); Region: DUF697; cl12064 458817005132 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817005133 GTP/Mg2+ binding site [chemical binding]; other site 458817005134 G5 box; other site 458817005135 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 458817005136 G1 box; other site 458817005137 G1 box; other site 458817005138 GTP/Mg2+ binding site [chemical binding]; other site 458817005139 Switch I region; other site 458817005140 G2 box; other site 458817005141 G2 box; other site 458817005142 Switch I region; other site 458817005143 G3 box; other site 458817005144 G3 box; other site 458817005145 Switch II region; other site 458817005146 Switch II region; other site 458817005147 G4 box; other site 458817005148 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 458817005149 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 458817005150 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 458817005151 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 458817005152 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 458817005153 Restriction endonuclease; Region: Mrr_cat; cl00516 458817005154 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3972 458817005155 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 458817005156 Family description; Region: UvrD_C_2; cl15862 458817005157 Low molecular weight phosphatase family; Region: LMWPc; cd00115 458817005158 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 458817005159 active site 458817005160 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 458817005161 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 458817005162 HflX GTPase family; Region: HflX; cd01878 458817005163 G1 box; other site 458817005164 GTP/Mg2+ binding site [chemical binding]; other site 458817005165 Switch I region; other site 458817005166 G2 box; other site 458817005167 G3 box; other site 458817005168 Switch II region; other site 458817005169 G4 box; other site 458817005170 G5 box; other site 458817005171 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 458817005172 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 458817005173 GTP/Mg2+ binding site [chemical binding]; other site 458817005174 G4 box; other site 458817005175 G5 box; other site 458817005176 G1 box; other site 458817005177 Switch I region; other site 458817005178 G2 box; other site 458817005179 G3 box; other site 458817005180 Switch II region; other site 458817005181 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; cl14733 458817005182 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 458817005183 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 458817005184 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 458817005185 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 458817005186 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 458817005187 Sulfate transporter family; Region: Sulfate_transp; cl15842 458817005188 Sulfate transporter family; Region: Sulfate_transp; cl15842 458817005189 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 458817005190 ribonuclease E; Reviewed; Region: rne; PRK10811 458817005191 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 458817005192 homodimer interface [polypeptide binding]; other site 458817005193 oligonucleotide binding site [chemical binding]; other site 458817005194 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 458817005195 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 458817005196 RNA binding surface [nucleotide binding]; other site 458817005197 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 458817005198 active site 458817005199 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 458817005200 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 458817005201 motif II; other site 458817005202 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 458817005203 active site 458817005204 dimer interface [polypeptide binding]; other site 458817005205 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 458817005206 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 458817005207 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 458817005208 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 458817005209 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 458817005210 dimer interface [polypeptide binding]; other site 458817005211 active site 458817005212 CoA binding pocket [chemical binding]; other site 458817005213 Acyl transferase domain; Region: Acyl_transf_1; cl08282 458817005214 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 458817005215 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 458817005216 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 458817005217 NAD(P) binding site [chemical binding]; other site 458817005218 homotetramer interface [polypeptide binding]; other site 458817005219 homodimer interface [polypeptide binding]; other site 458817005220 active site 458817005221 Phosphopantetheine attachment site; Region: PP-binding; cl09936 458817005222 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 458817005223 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 458817005224 dimer interface [polypeptide binding]; other site 458817005225 active site 458817005226 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 458817005227 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 458817005228 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817005229 cytidine deaminase; Provisional; Region: PRK09027 458817005230 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 458817005231 active site 458817005232 catalytic motif [active] 458817005233 Zn binding site [ion binding]; other site 458817005234 Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members...; Region: cytidine_deaminase-like; cl00269 458817005235 exonuclease I; Provisional; Region: sbcB; PRK11779 458817005236 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 458817005237 active site 458817005238 substrate binding site [chemical binding]; other site 458817005239 catalytic site [active] 458817005240 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 458817005241 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 458817005242 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 458817005243 active site 458817005244 Int/Topo IB signature motif; other site 458817005245 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 458817005246 EVE domain; Region: EVE; cl00728 458817005247 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 458817005248 Uncharacterized conserved protein [Function unknown]; Region: COG4127 458817005249 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 458817005250 catalytic residues [active] 458817005251 catalytic nucleophile [active] 458817005252 Presynaptic Site I dimer interface [polypeptide binding]; other site 458817005253 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 458817005254 Synaptic Flat tetramer interface [polypeptide binding]; other site 458817005255 Synaptic Site I dimer interface [polypeptide binding]; other site 458817005256 DNA binding site [nucleotide binding] 458817005257 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 458817005258 active site 458817005259 NTP binding site [chemical binding]; other site 458817005260 metal binding triad [ion binding]; metal-binding site 458817005261 Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin...; Region: UBCc; cl00154 458817005262 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817005263 ATP binding site [chemical binding]; other site 458817005264 substrate interface [chemical binding]; other site 458817005265 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 458817005266 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 458817005267 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817005268 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 458817005269 DNA-binding site [nucleotide binding]; DNA binding site 458817005270 RNA-binding motif; other site 458817005271 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 458817005272 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817005273 Walker A/P-loop; other site 458817005274 ATP binding site [chemical binding]; other site 458817005275 Q-loop/lid; other site 458817005276 ABC transporter signature motif; other site 458817005277 Walker B; other site 458817005278 D-loop; other site 458817005279 H-loop/switch region; other site 458817005280 hypothetical protein; Provisional; Region: PRK11239 458817005281 Protein of unknown function, DUF480; Region: DUF480; cl01209 458817005282 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 458817005283 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 458817005284 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 458817005285 arginine decarboxylase; Provisional; Region: PRK05354 458817005286 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 458817005287 dimer interface [polypeptide binding]; other site 458817005288 active site 458817005289 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 458817005290 catalytic residues [active] 458817005291 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 458817005292 Adenosylmethionine decarboxylase; Region: SAM_decarbox; cl03253 458817005293 Arginase family; Region: Arginase; cl00306 458817005294 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 458817005295 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 458817005296 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 458817005297 YceI-like domain; Region: YceI; cl01001 458817005298 Protein of unknown function (DUF3802); Region: DUF3802; pfam12290 458817005299 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 458817005300 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 458817005301 Cache domain; Region: Cache_1; pfam02743 458817005302 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 458817005303 PAS domain S-box; Region: sensory_box; TIGR00229 458817005304 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 458817005305 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 458817005306 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817005307 dimer interface [polypeptide binding]; other site 458817005308 putative CheW interface [polypeptide binding]; other site 458817005309 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 458817005310 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 458817005311 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 458817005312 dimer interface [polypeptide binding]; other site 458817005313 motif 1; other site 458817005314 active site 458817005315 motif 2; other site 458817005316 motif 3; other site 458817005317 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 458817005318 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 458817005319 putative tRNA-binding site [nucleotide binding]; other site 458817005320 B3/4 domain; Region: B3_4; cl11458 458817005321 tRNA synthetase B5 domain; Region: B5; cl08394 458817005322 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 458817005323 dimer interface [polypeptide binding]; other site 458817005324 motif 1; other site 458817005325 motif 3; other site 458817005326 motif 2; other site 458817005327 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 458817005328 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 458817005329 IHF dimer interface [polypeptide binding]; other site 458817005330 IHF - DNA interface [nucleotide binding]; other site 458817005331 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 458817005332 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 458817005333 putative acyl-acceptor binding pocket; other site 458817005334 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 458817005335 ATP binding site [chemical binding]; other site 458817005336 active site 458817005337 substrate binding site [chemical binding]; other site 458817005338 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 458817005339 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 458817005340 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 458817005341 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 458817005342 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 458817005343 substrate binding site [chemical binding]; other site 458817005344 glutamase interaction surface [polypeptide binding]; other site 458817005345 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 458817005346 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 458817005347 catalytic residues [active] 458817005348 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 458817005349 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 458817005350 putative active site [active] 458817005351 oxyanion strand; other site 458817005352 catalytic triad [active] 458817005353 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 458817005354 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 458817005355 active site 458817005356 motif I; other site 458817005357 motif II; other site 458817005358 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 458817005359 putative active site pocket [active] 458817005360 4-fold oligomerization interface [polypeptide binding]; other site 458817005361 metal binding residues [ion binding]; metal-binding site 458817005362 3-fold/trimer interface [polypeptide binding]; other site 458817005363 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 458817005364 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 458817005365 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817005366 homodimer interface [polypeptide binding]; other site 458817005367 catalytic residue [active] 458817005368 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 458817005369 histidinol dehydrogenase; Region: hisD; TIGR00069 458817005370 NAD binding site [chemical binding]; other site 458817005371 dimerization interface [polypeptide binding]; other site 458817005372 product binding site; other site 458817005373 substrate binding site [chemical binding]; other site 458817005374 zinc binding site [ion binding]; other site 458817005375 catalytic residues [active] 458817005376 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 458817005377 ATP phosphoribosyltransferase; Region: HisG; cl15266 458817005378 HisG, C-terminal domain; Region: HisG_C; cl06867 458817005379 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 458817005380 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817005381 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 458817005382 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 458817005383 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817005384 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458817005385 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 458817005386 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 458817005387 AMP-binding enzyme; Region: AMP-binding; cl15778 458817005388 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 458817005389 ribonuclease D; Provisional; Region: PRK10829 458817005390 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 458817005391 putative active site [active] 458817005392 catalytic site [active] 458817005393 putative substrate binding site [chemical binding]; other site 458817005394 HRDC domain; Region: HRDC; cl02578 458817005395 Septum formation topological specificity factor MinE; Region: MinE; cl00538 458817005396 cell division inhibitor MinD; Provisional; Region: PRK10818 458817005397 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 458817005398 Switch I; other site 458817005399 Switch II; other site 458817005400 septum formation inhibitor; Reviewed; Region: minC; PRK04804 458817005401 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 458817005402 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 458817005403 YcgL domain; Region: YcgL; cl01189 458817005404 Transglycosylase SLT domain; Region: SLT_2; pfam13406 458817005405 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 458817005406 Flagellin N-methylase; Region: FliB; cl00497 458817005407 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 458817005408 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 458817005409 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 458817005410 transmembrane helices; other site 458817005411 fatty acid metabolism regulator; Provisional; Region: PRK04984 458817005412 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458817005413 DNA-binding site [nucleotide binding]; DNA binding site 458817005414 FCD domain; Region: FCD; cl11656 458817005415 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 458817005416 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 458817005417 Family of unknown function (DUF490); Region: DUF490; pfam04357 458817005418 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 458817005419 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 458817005420 Surface antigen; Region: Bac_surface_Ag; cl03097 458817005421 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 458817005422 active site 458817005423 dimer interface [polypeptide binding]; other site 458817005424 catalytic nucleophile [active] 458817005425 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 458817005426 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 458817005427 active site 458817005428 FOG: CBS domain [General function prediction only]; Region: COG0517 458817005429 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 458817005430 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 458817005431 active site 458817005432 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817005433 metal binding site [ion binding]; metal-binding site 458817005434 active site 458817005435 I-site; other site 458817005436 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 458817005437 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 458817005438 ATP binding site [chemical binding]; other site 458817005439 putative Mg++ binding site [ion binding]; other site 458817005440 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 458817005441 nucleotide binding region [chemical binding]; other site 458817005442 ATP-binding site [chemical binding]; other site 458817005443 Helicase associated domain (HA2); Region: HA2; cl04503 458817005444 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 458817005445 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 458817005446 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 458817005447 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 458817005448 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 458817005449 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 458817005450 ATP-grasp domain; Region: ATP-grasp_4; cl03087 458817005451 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 458817005452 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817005453 Family description; Region: UvrD_C_2; cl15862 458817005454 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 458817005455 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817005456 Family description; Region: UvrD_C_2; cl15862 458817005457 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 458817005458 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 458817005459 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 458817005460 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 458817005461 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 458817005462 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 458817005463 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 458817005464 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 458817005465 MoxR-like ATPases [General function prediction only]; Region: COG0714 458817005466 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 458817005467 Walker A motif; other site 458817005468 ATP binding site [chemical binding]; other site 458817005469 Walker B motif; other site 458817005470 arginine finger; other site 458817005471 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 458817005472 lytic murein transglycosylase; Provisional; Region: PRK11619 458817005473 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 458817005474 N-acetyl-D-glucosamine binding site [chemical binding]; other site 458817005475 catalytic residue [active] 458817005476 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 458817005477 RmuC family; Region: RmuC; pfam02646 458817005478 TMAO/DMSO reductase; Reviewed; Region: PRK05363 458817005479 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 458817005480 Moco binding site; other site 458817005481 metal coordination site [ion binding]; other site 458817005482 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 458817005483 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 458817005484 AsmA family; Region: AsmA; pfam05170 458817005485 AsmA-like C-terminal region; Region: AsmA_2; cl15864 458817005486 Intracellular proteinase inhibitor; Region: BsuPI; pfam12690 458817005487 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 458817005488 N-acetyl-D-glucosamine binding site [chemical binding]; other site 458817005489 catalytic residue [active] 458817005490 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 458817005491 putative peptidoglycan binding site; other site 458817005492 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 458817005493 putative peptidoglycan binding site; other site 458817005494 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 458817005495 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 458817005496 putative peptidoglycan binding site; other site 458817005497 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 458817005498 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 458817005499 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817005500 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 458817005501 Helix-turn-helix domains; Region: HTH; cl00088 458817005502 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 458817005503 putative dimerization interface [polypeptide binding]; other site 458817005504 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 458817005505 RNA/DNA hybrid binding site [nucleotide binding]; other site 458817005506 active site 458817005507 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 458817005508 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 458817005509 active site 458817005510 substrate binding site [chemical binding]; other site 458817005511 catalytic site [active] 458817005512 TIGR03503 family protein; Region: TIGR03503 458817005513 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 458817005514 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817005515 Helix-turn-helix domains; Region: HTH; cl00088 458817005516 Winged helix-turn helix; Region: HTH_29; pfam13551 458817005517 Helix-turn-helix domains; Region: HTH; cl00088 458817005518 Integrase core domain; Region: rve; cl01316 458817005519 Helix-turn-helix domains; Region: HTH; cl00088 458817005520 Winged helix-turn helix; Region: HTH_29; pfam13551 458817005521 Helix-turn-helix domains; Region: HTH; cl00088 458817005522 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 458817005523 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 458817005524 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH5; cd08189 458817005525 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 458817005526 putative active site [active] 458817005527 metal binding site [ion binding]; metal-binding site 458817005528 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817005529 Helix-turn-helix domains; Region: HTH; cl00088 458817005530 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 458817005531 Sulfatase; Region: Sulfatase; cl10460 458817005532 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 458817005533 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 458817005534 FeS/SAM binding site; other site 458817005535 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 458817005536 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 458817005537 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 458817005538 heme binding site [chemical binding]; other site 458817005539 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 458817005540 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 458817005541 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 458817005542 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 458817005543 active site 458817005544 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 458817005545 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 458817005546 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 458817005547 putative active site [active] 458817005548 putative dimer interface [polypeptide binding]; other site 458817005549 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 458817005550 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 458817005551 active site 458817005552 DNA binding site [nucleotide binding] 458817005553 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 458817005554 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 458817005555 putative substrate translocation pore; other site 458817005556 multidrug resistance protein MdtH; Provisional; Region: PRK11646 458817005557 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 458817005558 active site 458817005559 catalytic residues [active] 458817005560 metal binding site [ion binding]; metal-binding site 458817005561 DTW domain; Region: DTW; cl01221 458817005562 Haemolysin-III related; Region: HlyIII; cl03831 458817005563 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 458817005564 ThiC-associated domain; Region: ThiC-associated; pfam13667 458817005565 ThiC family; Region: ThiC; cl08031 458817005566 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 458817005567 dimer interface [polypeptide binding]; other site 458817005568 substrate binding site [chemical binding]; other site 458817005569 ATP binding site [chemical binding]; other site 458817005570 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 458817005571 thiamine phosphate binding site [chemical binding]; other site 458817005572 active site 458817005573 pyrophosphate binding site [ion binding]; other site 458817005574 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 458817005575 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 458817005576 ATP binding site [chemical binding]; other site 458817005577 substrate interface [chemical binding]; other site 458817005578 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 458817005579 thiS-thiF/thiG interaction site; other site 458817005580 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 458817005581 ThiS interaction site; other site 458817005582 putative active site [active] 458817005583 tetramer interface [polypeptide binding]; other site 458817005584 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 458817005585 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 458817005586 FeS/SAM binding site; other site 458817005587 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 458817005588 Response regulator receiver domain; Region: Response_reg; pfam00072 458817005589 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817005590 active site 458817005591 phosphorylation site [posttranslational modification] 458817005592 intermolecular recognition site; other site 458817005593 dimerization interface [polypeptide binding]; other site 458817005594 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 458817005595 dimer interface [polypeptide binding]; other site 458817005596 phosphorylation site [posttranslational modification] 458817005597 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 458817005598 ATP binding site [chemical binding]; other site 458817005599 Mg2+ binding site [ion binding]; other site 458817005600 G-X-G motif; other site 458817005601 Response regulator receiver domain; Region: Response_reg; pfam00072 458817005602 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817005603 active site 458817005604 phosphorylation site [posttranslational modification] 458817005605 intermolecular recognition site; other site 458817005606 dimerization interface [polypeptide binding]; other site 458817005607 Domain of unknown function (DUF3541); Region: DUF3541; pfam12060 458817005608 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 458817005609 ATP-grasp domain; Region: ATP-grasp_4; cl03087 458817005610 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 458817005611 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 458817005612 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 458817005613 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 458817005614 S-adenosylmethionine binding site [chemical binding]; other site 458817005615 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 458817005616 S-adenosylmethionine binding site [chemical binding]; other site 458817005617 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 458817005618 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 458817005619 substrate binding pocket [chemical binding]; other site 458817005620 membrane-bound complex binding site; other site 458817005621 hinge residues; other site 458817005622 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 458817005623 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 458817005624 substrate binding pocket [chemical binding]; other site 458817005625 membrane-bound complex binding site; other site 458817005626 hinge residues; other site 458817005627 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 458817005628 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 458817005629 substrate binding pocket [chemical binding]; other site 458817005630 membrane-bound complex binding site; other site 458817005631 hinge residues; other site 458817005632 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817005633 metal binding site [ion binding]; metal-binding site 458817005634 active site 458817005635 I-site; other site 458817005636 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 458817005637 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 458817005638 dimer interface [polypeptide binding]; other site 458817005639 anticodon binding site; other site 458817005640 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 458817005641 homodimer interface [polypeptide binding]; other site 458817005642 motif 1; other site 458817005643 active site 458817005644 motif 2; other site 458817005645 GAD domain; Region: GAD; pfam02938 458817005646 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 458817005647 active site 458817005648 motif 3; other site 458817005649 Transcriptional regulator; Region: Transcrip_reg; cl00361 458817005650 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 458817005651 active site 458817005652 putative DNA-binding cleft [nucleotide binding]; other site 458817005653 dimer interface [polypeptide binding]; other site 458817005654 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 458817005655 RuvA N terminal domain; Region: RuvA_N; pfam01330 458817005656 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 458817005657 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 458817005658 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 458817005659 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 458817005660 Walker A motif; other site 458817005661 ATP binding site [chemical binding]; other site 458817005662 Walker B motif; other site 458817005663 arginine finger; other site 458817005664 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 458817005665 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 458817005666 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 458817005667 N-terminal plug; other site 458817005668 ligand-binding site [chemical binding]; other site 458817005669 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 458817005670 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 458817005671 dimer interface [polypeptide binding]; other site 458817005672 active site 458817005673 metal binding site [ion binding]; metal-binding site 458817005674 glutathione binding site [chemical binding]; other site 458817005675 endonuclease III; Provisional; Region: PRK10702 458817005676 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 458817005677 minor groove reading motif; other site 458817005678 helix-hairpin-helix signature motif; other site 458817005679 substrate binding pocket [chemical binding]; other site 458817005680 active site 458817005681 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 458817005682 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 458817005683 FMN-binding domain; Region: FMN_bind; cl01081 458817005684 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 458817005685 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 458817005686 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 458817005687 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 458817005688 SLBB domain; Region: SLBB; pfam10531 458817005689 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 458817005690 electron transport complex protein RnfB; Provisional; Region: PRK05113 458817005691 Putative Fe-S cluster; Region: FeS; pfam04060 458817005692 4Fe-4S binding domain; Region: Fer4; cl02805 458817005693 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 458817005694 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817005695 metal binding site [ion binding]; metal-binding site 458817005696 active site 458817005697 I-site; other site 458817005698 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 458817005699 excinuclease ABC subunit B; Provisional; Region: PRK05298 458817005700 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 458817005701 ATP binding site [chemical binding]; other site 458817005702 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 458817005703 nucleotide binding region [chemical binding]; other site 458817005704 ATP-binding site [chemical binding]; other site 458817005705 Ultra-violet resistance protein B; Region: UvrB; pfam12344 458817005706 UvrB/uvrC motif; Region: UVR; pfam02151 458817005707 Rhomboid family; Region: Rhomboid; cl11446 458817005708 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 458817005709 Ligand Binding Site [chemical binding]; other site 458817005710 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 458817005711 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 458817005712 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 458817005713 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458817005714 catalytic residue [active] 458817005715 Ribosomal S4P (gammaproteobacterial); Region: Ribosomal_S4Pg; pfam11993 458817005716 Protein of unknown function (DUF406); Region: DUF406; cl11449 458817005717 GAF domain; Region: GAF; cl15785 458817005718 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 458817005719 PAS domain; Region: PAS_9; pfam13426 458817005720 putative active site [active] 458817005721 heme pocket [chemical binding]; other site 458817005722 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817005723 metal binding site [ion binding]; metal-binding site 458817005724 active site 458817005725 I-site; other site 458817005726 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 458817005727 hypothetical protein; Provisional; Region: PRK01617 458817005728 SEC-C motif; Region: SEC-C; pfam02810 458817005729 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 458817005730 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 458817005731 Smr domain; Region: Smr; cl02619 458817005732 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 458817005733 Helix-turn-helix domains; Region: HTH; cl00088 458817005734 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 458817005735 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 458817005736 active site 458817005737 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 458817005738 pyruvate kinase; Provisional; Region: PRK05826 458817005739 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 458817005740 domain interfaces; other site 458817005741 active site 458817005742 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 458817005743 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 458817005744 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 458817005745 putative active site [active] 458817005746 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 458817005747 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 458817005748 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 458817005749 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 458817005750 putative active site [active] 458817005751 Dehydratase family; Region: ILVD_EDD; cl00340 458817005752 6-phosphogluconate dehydratase; Region: edd; TIGR01196 458817005753 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 458817005754 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 458817005755 active site 458817005756 intersubunit interface [polypeptide binding]; other site 458817005757 catalytic residue [active] 458817005758 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cl00178 458817005759 secondary substrate binding site; other site 458817005760 primary substrate binding site; other site 458817005761 inhibition loop; other site 458817005762 Cation efflux family; Region: Cation_efflux; cl00316 458817005763 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 458817005764 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 458817005765 Helix-turn-helix domains; Region: HTH; cl00088 458817005766 putative metal dependent hydrolase; Provisional; Region: PRK11598 458817005767 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 458817005768 Sulfatase; Region: Sulfatase; cl10460 458817005769 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817005770 metal binding site [ion binding]; metal-binding site 458817005771 active site 458817005772 I-site; other site 458817005773 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 458817005774 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817005775 CoA-ligase; Region: Ligase_CoA; cl02894 458817005776 ATP-grasp domain; Region: ATP-grasp_4; cl03087 458817005777 Transcriptional regulators [Transcription]; Region: GntR; COG1802 458817005778 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458817005779 DNA-binding site [nucleotide binding]; DNA binding site 458817005780 FCD domain; Region: FCD; cl11656 458817005781 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 458817005782 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 458817005783 tetramer interface [polypeptide binding]; other site 458817005784 active site 458817005785 Mg2+/Mn2+ binding site [ion binding]; other site 458817005786 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 458817005787 dimer interface [polypeptide binding]; other site 458817005788 Citrate synthase; Region: Citrate_synt; pfam00285 458817005789 active site 458817005790 citrylCoA binding site [chemical binding]; other site 458817005791 oxalacetate/citrate binding site [chemical binding]; other site 458817005792 coenzyme A binding site [chemical binding]; other site 458817005793 catalytic triad [active] 458817005794 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 458817005795 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 458817005796 substrate binding site [chemical binding]; other site 458817005797 ligand binding site [chemical binding]; other site 458817005798 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 458817005799 substrate binding site [chemical binding]; other site 458817005800 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 458817005801 PrpF protein; Region: PrpF; pfam04303 458817005802 Flagellin N-methylase; Region: FliB; cl00497 458817005803 tellurite resistance protein TehB; Provisional; Region: PRK12335 458817005804 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817005805 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 458817005806 REJ domain; Region: REJ; pfam02010 458817005807 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 458817005808 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 458817005809 DNA binding residues [nucleotide binding] 458817005810 dimerization interface [polypeptide binding]; other site 458817005811 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 458817005812 EF-hand domain pair; Region: EF_hand_5; pfam13499 458817005813 Ca2+ binding site [ion binding]; other site 458817005814 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 458817005815 Helix-turn-helix domains; Region: HTH; cl00088 458817005816 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 458817005817 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817005818 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817005819 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817005820 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 458817005821 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 458817005822 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 458817005823 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 458817005824 metal ion-dependent adhesion site (MIDAS); other site 458817005825 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 458817005826 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 458817005827 DNA binding residues [nucleotide binding] 458817005828 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 458817005829 active site 458817005830 catalytic residues [active] 458817005831 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 458817005832 PA/protease or protease-like domain interface [polypeptide binding]; other site 458817005833 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 458817005834 catalytic residues [active] 458817005835 two component system sensor kinase SsrB; Provisional; Region: PRK15369 458817005836 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817005837 active site 458817005838 phosphorylation site [posttranslational modification] 458817005839 intermolecular recognition site; other site 458817005840 dimerization interface [polypeptide binding]; other site 458817005841 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 458817005842 DNA binding residues [nucleotide binding] 458817005843 dimerization interface [polypeptide binding]; other site 458817005844 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 458817005845 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 458817005846 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 458817005847 Histidine kinase; Region: HisKA_3; pfam07730 458817005848 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 458817005849 active site 458817005850 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 458817005851 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 458817005852 C-terminal domain interface [polypeptide binding]; other site 458817005853 GSH binding site (G-site) [chemical binding]; other site 458817005854 dimer interface [polypeptide binding]; other site 458817005855 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 458817005856 dimer interface [polypeptide binding]; other site 458817005857 N-terminal domain interface [polypeptide binding]; other site 458817005858 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 458817005859 Phasin protein; Region: Phasin_2; cl11491 458817005860 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 458817005861 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 458817005862 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 458817005863 dimer interaction site [polypeptide binding]; other site 458817005864 substrate-binding tunnel; other site 458817005865 active site 458817005866 catalytic site [active] 458817005867 substrate binding site [chemical binding]; other site 458817005868 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 458817005869 EF-hand domain pair; Region: EF_hand_5; pfam13499 458817005870 Ca2+ binding site [ion binding]; other site 458817005871 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 458817005872 Eukaryotic Glutathione Synthetase (eu-GS); catalyses the production of glutathione from gamma-glutamylcysteine and glycine in an ATP-dependent manner. Belongs to the ATP-grasp superfamily; Region: eu-GS; cl00170 458817005873 dimerization unit; other site 458817005874 glutathione (GSH) binding pocket [chemical binding]; other site 458817005875 active site residues [active] 458817005876 ATP binding pocket [chemical binding]; other site 458817005877 magnesium binding site [ion binding]; other site 458817005878 glycine rich loop; other site 458817005879 alanine rich loop; other site 458817005880 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 458817005881 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 458817005882 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 458817005883 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 458817005884 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 458817005885 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817005886 Transposase; Region: DEDD_Tnp_IS110; pfam01548 458817005887 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 458817005888 DNA helicase IV; Provisional; Region: helD; PRK11054 458817005889 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817005890 DNA helicase IV; Provisional; Region: helD; PRK11054 458817005891 Family description; Region: UvrD_C_2; cl15862 458817005892 DNA topoisomerase I; Validated; Region: PRK07219 458817005893 excinuclease ABC subunit B; Provisional; Region: PRK05298 458817005894 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 458817005895 ATP binding site [chemical binding]; other site 458817005896 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 458817005897 nucleotide binding region [chemical binding]; other site 458817005898 ATP-binding site [chemical binding]; other site 458817005899 Ultra-violet resistance protein B; Region: UvrB; pfam12344 458817005900 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; cl00248 458817005901 dimerization interface [polypeptide binding]; other site 458817005902 substrate binding site [chemical binding]; other site 458817005903 active site 458817005904 calcium binding site [ion binding]; other site 458817005905 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 458817005906 trimer interface [polypeptide binding]; other site 458817005907 active site 458817005908 substrate binding site [chemical binding]; other site 458817005909 CoA binding site [chemical binding]; other site 458817005910 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 458817005911 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 458817005912 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 458817005913 ABC transporter; Region: ABC_tran_2; pfam12848 458817005914 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 458817005915 Transcriptional regulators [Transcription]; Region: PurR; COG1609 458817005916 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 458817005917 DNA binding site [nucleotide binding] 458817005918 domain linker motif; other site 458817005919 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 458817005920 dimerization interface [polypeptide binding]; other site 458817005921 ligand binding site [chemical binding]; other site 458817005922 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 458817005923 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 458817005924 inhibitor binding site; inhibition site 458817005925 catalytic Zn binding site [ion binding]; other site 458817005926 structural Zn binding site [ion binding]; other site 458817005927 NADP binding site [chemical binding]; other site 458817005928 tetramer interface [polypeptide binding]; other site 458817005929 D-xylulose kinases, subgroup 1; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 458817005930 N- and C-terminal domain interface [polypeptide binding]; other site 458817005931 D-xylulose kinase; Region: XylB; TIGR01312 458817005932 active site 458817005933 catalytic site [active] 458817005934 metal binding site [ion binding]; metal-binding site 458817005935 xylulose binding site [chemical binding]; other site 458817005936 ATP binding site [chemical binding]; other site 458817005937 putative homodimer interface [polypeptide binding]; other site 458817005938 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 458817005939 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 458817005940 Walker A/P-loop; other site 458817005941 ATP binding site [chemical binding]; other site 458817005942 Q-loop/lid; other site 458817005943 ABC transporter signature motif; other site 458817005944 Walker B; other site 458817005945 D-loop; other site 458817005946 H-loop/switch region; other site 458817005947 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 458817005948 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 458817005949 TM-ABC transporter signature motif; other site 458817005950 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 458817005951 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 458817005952 putative ligand binding site [chemical binding]; other site 458817005953 Cupin domain; Region: Cupin_2; cl09118 458817005954 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 458817005955 multidrug efflux protein; Reviewed; Region: PRK01766 458817005956 MatE; Region: MatE; cl10513 458817005957 MatE; Region: MatE; cl10513 458817005958 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 458817005959 Lumazine binding domain; Region: Lum_binding; pfam00677 458817005960 Lumazine binding domain; Region: Lum_binding; pfam00677 458817005961 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 458817005962 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817005963 pteridine reductase; Provisional; Region: PRK09135 458817005964 NAD(P) binding site [chemical binding]; other site 458817005965 active site 458817005966 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 458817005967 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 458817005968 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 458817005969 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 458817005970 active site 458817005971 dimer interface [polypeptide binding]; other site 458817005972 motif 1; other site 458817005973 motif 2; other site 458817005974 motif 3; other site 458817005975 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 458817005976 anticodon binding site; other site 458817005977 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 458817005978 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 458817005979 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 458817005980 ribosomal protein L20; Region: rpl20; CHL00068 458817005981 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 458817005982 23S rRNA binding site [nucleotide binding]; other site 458817005983 L21 binding site [polypeptide binding]; other site 458817005984 L13 binding site [polypeptide binding]; other site 458817005985 thioredoxin reductase; Provisional; Region: PRK10262 458817005986 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458817005987 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 458817005988 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 458817005989 putative active site [active] 458817005990 Zn binding site [ion binding]; other site 458817005991 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 458817005992 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 458817005993 active site 458817005994 homodimer interface [polypeptide binding]; other site 458817005995 protease 4; Provisional; Region: PRK10949 458817005996 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 458817005997 tandem repeat interface [polypeptide binding]; other site 458817005998 oligomer interface [polypeptide binding]; other site 458817005999 active site residues [active] 458817006000 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 458817006001 tandem repeat interface [polypeptide binding]; other site 458817006002 oligomer interface [polypeptide binding]; other site 458817006003 active site residues [active] 458817006004 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 458817006005 active site 458817006006 FMN binding site [chemical binding]; other site 458817006007 2,4-decadienoyl-CoA binding site; other site 458817006008 catalytic residue [active] 458817006009 4Fe-4S cluster binding site [ion binding]; other site 458817006010 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 458817006011 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817006012 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 458817006013 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 458817006014 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 458817006015 catalytic loop [active] 458817006016 iron binding site [ion binding]; other site 458817006017 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 458817006018 dimer interface [polypeptide binding]; other site 458817006019 putative radical transfer pathway; other site 458817006020 diiron center [ion binding]; other site 458817006021 tyrosyl radical; other site 458817006022 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 458817006023 ATP cone domain; Region: ATP-cone; pfam03477 458817006024 Class I ribonucleotide reductase; Region: RNR_I; cd01679 458817006025 active site 458817006026 dimer interface [polypeptide binding]; other site 458817006027 catalytic residues [active] 458817006028 effector binding site; other site 458817006029 R2 peptide binding site; other site 458817006030 phosphoglycolate phosphatase; Provisional; Region: PRK13222 458817006031 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 458817006032 motif II; other site 458817006033 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 458817006034 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 458817006035 S-adenosylmethionine binding site [chemical binding]; other site 458817006036 DNA gyrase subunit A; Validated; Region: PRK05560 458817006037 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 458817006038 CAP-like domain; other site 458817006039 active site 458817006040 primary dimer interface [polypeptide binding]; other site 458817006041 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 458817006042 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 458817006043 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 458817006044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 458817006045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 458817006046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 458817006047 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 458817006048 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 458817006049 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 458817006050 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458817006051 catalytic residue [active] 458817006052 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 458817006053 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 458817006054 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817006055 homodimer interface [polypeptide binding]; other site 458817006056 catalytic residue [active] 458817006057 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 458817006058 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 458817006059 hinge; other site 458817006060 active site 458817006061 cytidylate kinase; Provisional; Region: cmk; PRK00023 458817006062 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 458817006063 CMP-binding site; other site 458817006064 The sites determining sugar specificity; other site 458817006065 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 458817006066 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 458817006067 RNA binding site [nucleotide binding]; other site 458817006068 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 458817006069 RNA binding site [nucleotide binding]; other site 458817006070 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 458817006071 RNA binding site [nucleotide binding]; other site 458817006072 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 458817006073 RNA binding site [nucleotide binding]; other site 458817006074 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 458817006075 RNA binding site [nucleotide binding]; other site 458817006076 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec6; cd05691 458817006077 RNA binding site [nucleotide binding]; other site 458817006078 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 458817006079 IHF dimer interface [polypeptide binding]; other site 458817006080 IHF - DNA interface [nucleotide binding]; other site 458817006081 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 458817006082 tetratricopeptide repeat protein; Provisional; Region: PRK11788 458817006083 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 458817006084 binding surface 458817006085 TPR motif; other site 458817006086 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 458817006087 active site 458817006088 dimer interface [polypeptide binding]; other site 458817006089 short chain dehydrogenase; Provisional; Region: PRK07576 458817006090 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 458817006091 NAD(P) binding site [chemical binding]; other site 458817006092 substrate binding site [chemical binding]; other site 458817006093 homotetramer interface [polypeptide binding]; other site 458817006094 active site 458817006095 homodimer interface [polypeptide binding]; other site 458817006096 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; cl01201 458817006097 Protein of unknown function, DUF486; Region: DUF486; cl01236 458817006098 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 458817006099 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 458817006100 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 458817006101 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 458817006102 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 458817006103 active site 458817006104 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 458817006105 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 458817006106 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 458817006107 Domain of unknown function (DUF1904); Region: DUF1904; pfam08921 458817006108 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 458817006109 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 458817006110 domain interface [polypeptide binding]; other site 458817006111 putative active site [active] 458817006112 catalytic site [active] 458817006113 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 458817006114 domain interface [polypeptide binding]; other site 458817006115 putative active site [active] 458817006116 catalytic site [active] 458817006117 DTW domain; Region: DTW; cl01221 458817006118 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 458817006119 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817006120 active site 458817006121 phosphorylation site [posttranslational modification] 458817006122 intermolecular recognition site; other site 458817006123 dimerization interface [polypeptide binding]; other site 458817006124 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 458817006125 DNA binding residues [nucleotide binding] 458817006126 dimerization interface [polypeptide binding]; other site 458817006127 NMT1-like family; Region: NMT1_2; cl15260 458817006128 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 458817006129 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 458817006130 dimer interface [polypeptide binding]; other site 458817006131 phosphorylation site [posttranslational modification] 458817006132 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 458817006133 ATP binding site [chemical binding]; other site 458817006134 Mg2+ binding site [ion binding]; other site 458817006135 G-X-G motif; other site 458817006136 ApbE family; Region: ApbE; cl00643 458817006137 FMN-binding domain; Region: FMN_bind; cl01081 458817006138 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 458817006139 eyelet of channel; other site 458817006140 trimer interface [polypeptide binding]; other site 458817006141 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 458817006142 active site 458817006143 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 458817006144 DNA binding site [nucleotide binding] 458817006145 dimer interface [polypeptide binding]; other site 458817006146 Int/Topo IB signature motif; other site 458817006147 active site 458817006148 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 458817006149 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 458817006150 NADP binding site [chemical binding]; other site 458817006151 homodimer interface [polypeptide binding]; other site 458817006152 active site 458817006153 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 458817006154 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 458817006155 ATP-grasp domain; Region: ATP-grasp_4; cl03087 458817006156 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817006157 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 458817006158 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 458817006159 Protein of unknown function (DUF2989); Region: DUF2989; pfam11207 458817006160 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 458817006161 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817006162 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 458817006163 DsrC like protein; Region: DsrC; cl01101 458817006164 DsrE/DsrF-like family; Region: DrsE; cl00672 458817006165 DsrE/DsrF-like family; Region: DrsE; cl00672 458817006166 DsrE/DsrF-like family; Region: DrsE; cl00672 458817006167 YccA-like proteins; Region: YccA_like; cd10433 458817006168 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 458817006169 Helix-turn-helix domains; Region: HTH; cl00088 458817006170 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 458817006171 dimerization interface [polypeptide binding]; other site 458817006172 putative transporter; Provisional; Region: PRK11043 458817006173 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 458817006174 putative substrate translocation pore; other site 458817006175 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817006176 tropinone reductase; Provisional; Region: PRK09242 458817006177 NAD(P) binding site [chemical binding]; other site 458817006178 active site 458817006179 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 458817006180 putative substrate translocation pore; other site 458817006181 Major Facilitator Superfamily; Region: MFS_1; pfam07690 458817006182 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 458817006183 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 458817006184 active site 458817006185 catalytic residues [active] 458817006186 metal binding site [ion binding]; metal-binding site 458817006187 DmpG-like communication domain; Region: DmpG_comm; pfam07836 458817006188 acetaldehyde dehydrogenase; Validated; Region: PRK08300 458817006189 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817006190 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 458817006191 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 458817006192 Flavin Reductases; Region: FlaRed; cl00801 458817006193 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 458817006194 NAD(P) binding site [chemical binding]; other site 458817006195 catalytic residues [active] 458817006196 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 458817006197 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 458817006198 iron-sulfur cluster [ion binding]; other site 458817006199 [2Fe-2S] cluster binding site [ion binding]; other site 458817006200 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 458817006201 putative substrate translocation pore; other site 458817006202 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 458817006203 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 458817006204 AMP-binding enzyme; Region: AMP-binding; cl15778 458817006205 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK07843 458817006206 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817006207 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 458817006208 AMP-binding enzyme; Region: AMP-binding; cl15778 458817006209 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 458817006210 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 458817006211 Protein export membrane protein; Region: SecD_SecF; cl14618 458817006212 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 458817006213 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 458817006214 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 458817006215 active site 458817006216 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 458817006217 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 458817006218 FAD binding pocket [chemical binding]; other site 458817006219 FAD binding motif [chemical binding]; other site 458817006220 phosphate binding motif [ion binding]; other site 458817006221 beta-alpha-beta structure motif; other site 458817006222 NAD(p) ribose binding residues [chemical binding]; other site 458817006223 NAD binding pocket [chemical binding]; other site 458817006224 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 458817006225 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 458817006226 catalytic loop [active] 458817006227 iron binding site [ion binding]; other site 458817006228 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 458817006229 classical (c) SDRs; Region: SDR_c; cd05233 458817006230 NAD(P) binding site [chemical binding]; other site 458817006231 active site 458817006232 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 458817006233 FMN binding site [chemical binding]; other site 458817006234 active site 458817006235 substrate binding site [chemical binding]; other site 458817006236 catalytic residue [active] 458817006237 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 458817006238 Ligand binding site [chemical binding]; other site 458817006239 Electron transfer flavoprotein domain; Region: ETF; pfam01012 458817006240 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 458817006241 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 458817006242 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 458817006243 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 458817006244 DNA binding residues [nucleotide binding] 458817006245 dimerization interface [polypeptide binding]; other site 458817006246 enoyl-CoA hydratase; Provisional; Region: PRK08138 458817006247 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 458817006248 substrate binding site [chemical binding]; other site 458817006249 oxyanion hole (OAH) forming residues; other site 458817006250 trimer interface [polypeptide binding]; other site 458817006251 short chain dehydrogenase; Provisional; Region: PRK07856 458817006252 classical (c) SDRs; Region: SDR_c; cd05233 458817006253 NAD(P) binding site [chemical binding]; other site 458817006254 active site 458817006255 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 458817006256 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 458817006257 DUF35 OB-fold domain; Region: DUF35; pfam01796 458817006258 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 458817006259 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 458817006260 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 458817006261 active site 458817006262 SAV4209 is a Streptomyces avermitilis protein with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. The alpha- and...; Region: SAV4209; cd03455 458817006263 putative active site [active] 458817006264 putative catalytic site [active] 458817006265 lipid-transfer protein; Provisional; Region: PRK07855 458817006266 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 458817006267 active site 458817006268 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 458817006269 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 458817006270 active site 458817006271 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 458817006272 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 458817006273 active site 458817006274 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 458817006275 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 458817006276 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 458817006277 active site 458817006278 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 458817006279 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 458817006280 active site 458817006281 FMN binding site [chemical binding]; other site 458817006282 substrate binding site [chemical binding]; other site 458817006283 putative catalytic residue [active] 458817006284 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458817006285 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458817006286 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 458817006287 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 458817006288 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817006289 NAD(P) binding site [chemical binding]; other site 458817006290 active site 458817006291 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 458817006292 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 458817006293 AMP-binding enzyme; Region: AMP-binding; cl15778 458817006294 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 458817006295 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 458817006296 active site 458817006297 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 458817006298 DUF35 OB-fold domain; Region: DUF35; pfam01796 458817006299 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 458817006300 active site 2 [active] 458817006301 active site 1 [active] 458817006302 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 458817006303 N-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_N_like; cd07252 458817006304 C-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_C_like; cd07237 458817006305 active site 458817006306 Fe binding site [ion binding]; other site 458817006307 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 458817006308 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 458817006309 enoyl-CoA hydratase; Provisional; Region: PRK08290 458817006310 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 458817006311 substrate binding site [chemical binding]; other site 458817006312 oxyanion hole (OAH) forming residues; other site 458817006313 trimer interface [polypeptide binding]; other site 458817006314 Nitronate monooxygenase; Region: NMO; pfam03060 458817006315 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 458817006316 FMN binding site [chemical binding]; other site 458817006317 substrate binding site [chemical binding]; other site 458817006318 putative catalytic residue [active] 458817006319 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 458817006320 enoyl-CoA hydratase; Provisional; Region: PRK06495 458817006321 substrate binding site [chemical binding]; other site 458817006322 oxyanion hole (OAH) forming residues; other site 458817006323 trimer interface [polypeptide binding]; other site 458817006324 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; cl15762 458817006325 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 458817006326 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 458817006327 FAD binding site [chemical binding]; other site 458817006328 substrate binding site [chemical binding]; other site 458817006329 catalytic base [active] 458817006330 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 458817006331 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 458817006332 active site 458817006333 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 458817006334 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 458817006335 dimer interface [polypeptide binding]; other site 458817006336 active site 458817006337 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817006338 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 458817006339 NAD(P) binding site [chemical binding]; other site 458817006340 active site 458817006341 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 458817006342 Amidase; Region: Amidase; cl11426 458817006343 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 458817006344 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 458817006345 short chain dehydrogenase; Provisional; Region: PRK07831 458817006346 classical (c) SDRs; Region: SDR_c; cd05233 458817006347 NAD(P) binding site [chemical binding]; other site 458817006348 active site 458817006349 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 458817006350 putative active site [active] 458817006351 putative catalytic site [active] 458817006352 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 458817006353 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 458817006354 dimer interface [polypeptide binding]; other site 458817006355 active site 458817006356 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 458817006357 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 458817006358 substrate binding site [chemical binding]; other site 458817006359 oxyanion hole (OAH) forming residues; other site 458817006360 trimer interface [polypeptide binding]; other site 458817006361 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; cl15762 458817006362 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 458817006363 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817006364 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 458817006365 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817006366 short chain dehydrogenase; Validated; Region: PRK07069 458817006367 NAD(P) binding site [chemical binding]; other site 458817006368 active site 458817006369 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 458817006370 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 458817006371 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 458817006372 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 458817006373 active site 458817006374 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 458817006375 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 458817006376 active site 458817006377 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 458817006378 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817006379 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817006380 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817006381 SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Region: SWIM_PBPRA1643; TIGR04102 458817006382 SEC-C motif; Region: SEC-C; pfam02810 458817006383 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 458817006384 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 458817006385 DHHA2 domain; Region: DHHA2; pfam02833 458817006386 AAA domain; Region: AAA_32; pfam13654 458817006387 lon-related putative ATP-dependent protease; Region: lon_rel; TIGR00764 458817006388 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 458817006389 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 458817006390 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 458817006391 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 458817006392 molybdopterin cofactor binding site [chemical binding]; other site 458817006393 substrate binding site [chemical binding]; other site 458817006394 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 458817006395 molybdopterin cofactor binding site; other site 458817006396 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 458817006397 Peptidase family U32; Region: Peptidase_U32; cl03113 458817006398 Peptidase family U32; Region: Peptidase_U32; cl03113 458817006399 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 458817006400 active site residue [active] 458817006401 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 458817006402 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 458817006403 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1, 4-benzoquinol methylase [Coenzyme metabolism]; Region: UbiG; COG2227 458817006404 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 458817006405 S-adenosylmethionine binding site [chemical binding]; other site 458817006406 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 458817006407 cytosine deaminase; Provisional; Region: PRK09230 458817006408 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 458817006409 active site 458817006410 Sodium:solute symporter family; Region: SSF; cl00456 458817006411 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 458817006412 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 458817006413 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 458817006414 putative substrate translocation pore; other site 458817006415 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 458817006416 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 458817006417 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817006418 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817006419 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 458817006420 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817006421 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817006422 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 458817006423 Protein export membrane protein; Region: SecD_SecF; cl14618 458817006424 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 458817006425 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 458817006426 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 458817006427 active site 458817006428 DNA binding site [nucleotide binding] 458817006429 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 458817006430 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 458817006431 Catalytic site [active] 458817006432 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817006433 metal binding site [ion binding]; metal-binding site 458817006434 active site 458817006435 I-site; other site 458817006436 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 458817006437 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 458817006438 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 458817006439 active site 458817006440 metal binding site [ion binding]; metal-binding site 458817006441 Superfamily II helicase [General function prediction only]; Region: COG1204 458817006442 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 458817006443 ATP binding site [chemical binding]; other site 458817006444 putative Mg++ binding site [ion binding]; other site 458817006445 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817006446 Abortive infection C-terminus; Region: Abi_C; pfam14355 458817006447 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 458817006448 ATP binding site [chemical binding]; other site 458817006449 putative Mg++ binding site [ion binding]; other site 458817006450 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817006451 DNA-specific endonuclease I; Provisional; Region: PRK15137 458817006452 Endonuclease I; Region: Endonuclease_1; cl01003 458817006453 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 458817006454 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 458817006455 active site 458817006456 DNA binding site [nucleotide binding] 458817006457 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 458817006458 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 458817006459 Catalytic site [active] 458817006460 AAA domain; Region: AAA_13; pfam13166 458817006461 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817006462 ABC transporter signature motif; other site 458817006463 Walker B; other site 458817006464 D-loop; other site 458817006465 H-loop/switch region; other site 458817006466 FRG domain; Region: FRG; cl07460 458817006467 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 458817006468 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 458817006469 DNA binding site [nucleotide binding] 458817006470 Int/Topo IB signature motif; other site 458817006471 active site 458817006472 catalytic residues [active] 458817006473 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 458817006474 Int/Topo IB signature motif; other site 458817006475 active site 458817006476 DNA binding site [nucleotide binding] 458817006477 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 458817006478 Int/Topo IB signature motif; other site 458817006479 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 458817006480 Low-spin heme binding site [chemical binding]; other site 458817006481 Putative water exit pathway; other site 458817006482 Binuclear center (active site) [active] 458817006483 Putative proton exit pathway; other site 458817006484 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 458817006485 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 458817006486 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 458817006487 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 458817006488 Cytochrome c; Region: Cytochrom_C; cl11414 458817006489 Cytochrome c; Region: Cytochrom_C; cl11414 458817006490 FixH; Region: FixH; cl01254 458817006491 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 458817006492 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 458817006493 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 458817006494 metal-binding site [ion binding] 458817006495 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 458817006496 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 458817006497 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 458817006498 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 458817006499 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 458817006500 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 458817006501 ligand binding site [chemical binding]; other site 458817006502 flexible hinge region; other site 458817006503 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 458817006504 putative switch regulator; other site 458817006505 non-specific DNA interactions [nucleotide binding]; other site 458817006506 DNA binding site [nucleotide binding] 458817006507 sequence specific DNA binding site [nucleotide binding]; other site 458817006508 putative cAMP binding site [chemical binding]; other site 458817006509 universal stress protein UspE; Provisional; Region: PRK11175 458817006510 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 458817006511 Ligand Binding Site [chemical binding]; other site 458817006512 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 458817006513 Ligand Binding Site [chemical binding]; other site 458817006514 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 458817006515 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 458817006516 Ligand Binding Site [chemical binding]; other site 458817006517 Protein of unknown function (DUF2987); Region: DUF2987; pfam11205 458817006518 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 458817006519 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 458817006520 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 458817006521 phosphate binding site [ion binding]; other site 458817006522 putative substrate binding pocket [chemical binding]; other site 458817006523 dimer interface [polypeptide binding]; other site 458817006524 HPP family; Region: HPP; pfam04982 458817006525 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 458817006526 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 458817006527 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817006528 homodimer interface [polypeptide binding]; other site 458817006529 catalytic residue [active] 458817006530 seryl-tRNA synthetase; Provisional; Region: PRK05431 458817006531 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 458817006532 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 458817006533 dimer interface [polypeptide binding]; other site 458817006534 active site 458817006535 motif 1; other site 458817006536 motif 2; other site 458817006537 motif 3; other site 458817006538 CrcB-like protein; Region: CRCB; cl09114 458817006539 recombination factor protein RarA; Reviewed; Region: PRK13342 458817006540 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 458817006541 Walker A motif; other site 458817006542 ATP binding site [chemical binding]; other site 458817006543 Walker B motif; other site 458817006544 arginine finger; other site 458817006545 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 458817006546 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 458817006547 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 458817006548 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 458817006549 DNA translocase FtsK; Provisional; Region: PRK10263 458817006550 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817006551 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 458817006552 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 458817006553 Helix-turn-helix domains; Region: HTH; cl00088 458817006554 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 458817006555 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 458817006556 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817006557 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 458817006558 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817006559 active site 458817006560 phosphorylation site [posttranslational modification] 458817006561 intermolecular recognition site; other site 458817006562 dimerization interface [polypeptide binding]; other site 458817006563 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 458817006564 DNA binding site [nucleotide binding] 458817006565 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 458817006566 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 458817006567 ATP binding site [chemical binding]; other site 458817006568 putative Mg++ binding site [ion binding]; other site 458817006569 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 458817006570 nucleotide binding region [chemical binding]; other site 458817006571 ATP-binding site [chemical binding]; other site 458817006572 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 458817006573 putative catalytic site [active] 458817006574 putative phosphate binding site [ion binding]; other site 458817006575 putative metal binding site [ion binding]; other site 458817006576 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 458817006577 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 458817006578 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 458817006579 putative active site [active] 458817006580 catalytic site [active] 458817006581 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 458817006582 putative active site [active] 458817006583 catalytic site [active] 458817006584 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 458817006585 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 458817006586 active site 458817006587 metal binding site [ion binding]; metal-binding site 458817006588 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 458817006589 Lamin Tail Domain; Region: LTD; pfam00932 458817006590 Endonuclease I; Region: Endonuclease_1; cl01003 458817006591 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 458817006592 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 458817006593 generic binding surface I; other site 458817006594 generic binding surface II; other site 458817006595 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 458817006596 putative catalytic site [active] 458817006597 putative metal binding site [ion binding]; other site 458817006598 putative phosphate binding site [ion binding]; other site 458817006599 Nitrate and nitrite sensing; Region: NIT; pfam08376 458817006600 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 458817006601 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 458817006602 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817006603 dimer interface [polypeptide binding]; other site 458817006604 putative CheW interface [polypeptide binding]; other site 458817006605 Quinolinate synthetase A protein; Region: NadA; cl00420 458817006606 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 458817006607 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 458817006608 E3 interaction surface; other site 458817006609 lipoyl attachment site [posttranslational modification]; other site 458817006610 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 458817006611 E3 interaction surface; other site 458817006612 lipoyl attachment site [posttranslational modification]; other site 458817006613 e3 binding domain; Region: E3_binding; pfam02817 458817006614 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 458817006615 3-methyl-2-oxobutanate dehydrogenase; Provisional; Region: PTZ00182 458817006616 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 458817006617 alpha subunit interface [polypeptide binding]; other site 458817006618 TPP binding site [chemical binding]; other site 458817006619 heterodimer interface [polypeptide binding]; other site 458817006620 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 458817006621 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 458817006622 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 458817006623 tetramer interface [polypeptide binding]; other site 458817006624 TPP-binding site [chemical binding]; other site 458817006625 heterodimer interface [polypeptide binding]; other site 458817006626 phosphorylation loop region [posttranslational modification] 458817006627 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 458817006628 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 458817006629 putative active site [active] 458817006630 Zn binding site [ion binding]; other site 458817006631 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 458817006632 phosphoglucomutase; Validated; Region: PRK07564 458817006633 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 458817006634 active site 458817006635 substrate binding site [chemical binding]; other site 458817006636 metal binding site [ion binding]; metal-binding site 458817006637 SeqA protein; Region: SeqA; cl11470 458817006638 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458817006639 acyl-CoA esterase; Provisional; Region: PRK10673 458817006640 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 458817006641 LexA regulated protein; Provisional; Region: PRK11675 458817006642 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 458817006643 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; cl01823 458817006644 elongation factor P; Validated; Region: PRK00529 458817006645 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 458817006646 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 458817006647 RNA binding site [nucleotide binding]; other site 458817006648 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 458817006649 RNA binding site [nucleotide binding]; other site 458817006650 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 458817006651 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 458817006652 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817006653 homodimer interface [polypeptide binding]; other site 458817006654 catalytic residue [active] 458817006655 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 458817006656 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 458817006657 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 458817006658 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 458817006659 MarC family integral membrane protein; Region: MarC; cl00919 458817006660 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 458817006661 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 458817006662 putative catalytic cysteine [active] 458817006663 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 458817006664 putative active site [active] 458817006665 metal binding site [ion binding]; metal-binding site 458817006666 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 458817006667 active site 458817006668 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817006669 Helix-turn-helix domains; Region: HTH; cl00088 458817006670 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 458817006671 substrate binding pocket [chemical binding]; other site 458817006672 dimerization interface [polypeptide binding]; other site 458817006673 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 458817006674 tetramer interface [polypeptide binding]; other site 458817006675 active site 458817006676 Mg2+/Mn2+ binding site [ion binding]; other site 458817006677 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 458817006678 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 458817006679 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458817006680 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 458817006681 Fumarase C-terminus; Region: Fumerase_C; cl00795 458817006682 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 458817006683 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 458817006684 chorismate binding enzyme; Region: Chorismate_bind; cl10555 458817006685 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 458817006686 putative active site [active] 458817006687 putative CoA binding site [chemical binding]; other site 458817006688 nudix motif; other site 458817006689 metal binding site [ion binding]; metal-binding site 458817006690 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 458817006691 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 458817006692 putative dimer interface [polypeptide binding]; other site 458817006693 putative anticodon binding site; other site 458817006694 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 458817006695 homodimer interface [polypeptide binding]; other site 458817006696 motif 1; other site 458817006697 motif 2; other site 458817006698 active site 458817006699 motif 3; other site 458817006700 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 458817006701 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 458817006702 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 458817006703 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 458817006704 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 458817006705 putative substrate-binding site; other site 458817006706 nickel binding site [ion binding]; other site 458817006707 dihydrolipoamide acetyltransferase; Provisional; Region: PRK14843 458817006708 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 458817006709 Acylphosphatase; Region: Acylphosphatase; cl00551 458817006710 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 458817006711 HypF finger; Region: zf-HYPF; pfam07503 458817006712 HypF finger; Region: zf-HYPF; pfam07503 458817006713 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 458817006714 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817006715 HupF/HypC family; Region: HupF_HypC; cl00394 458817006716 Hydrogenase formation hypA family; Region: HypD; cl12072 458817006717 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 458817006718 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 458817006719 dimerization interface [polypeptide binding]; other site 458817006720 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 458817006721 ATP binding site [chemical binding]; other site 458817006722 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 458817006723 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 458817006724 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 458817006725 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 458817006726 binding surface 458817006727 TPR motif; other site 458817006728 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 458817006729 binding surface 458817006730 TPR motif; other site 458817006731 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 458817006732 binding surface 458817006733 TPR motif; other site 458817006734 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 458817006735 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 458817006736 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 458817006737 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 458817006738 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 458817006739 ATP binding site [chemical binding]; other site 458817006740 Walker A motif; other site 458817006741 hexamer interface [polypeptide binding]; other site 458817006742 Walker B motif; other site 458817006743 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 458817006744 TadE-like protein; Region: TadE; cl10688 458817006745 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 458817006746 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 458817006747 SAF domain; Region: SAF; cl00555 458817006748 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 458817006749 Walker A motif; other site 458817006750 ATP binding site [chemical binding]; other site 458817006751 Walker B motif; other site 458817006752 arginine finger; other site 458817006753 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 458817006754 Flp/Fap pilin component; Region: Flp_Fap; cl01585 458817006755 Helix-turn-helix domains; Region: HTH; cl00088 458817006756 Winged helix-turn helix; Region: HTH_29; pfam13551 458817006757 Helix-turn-helix domains; Region: HTH; cl00088 458817006758 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 458817006759 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 458817006760 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 458817006761 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 458817006762 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 458817006763 Sulfatase; Region: Sulfatase; cl10460 458817006764 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 458817006765 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 458817006766 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 458817006767 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 458817006768 Ligand binding site; other site 458817006769 Putative Catalytic site; other site 458817006770 DXD motif; other site 458817006771 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 458817006772 S-adenosylmethionine binding site [chemical binding]; other site 458817006773 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 458817006774 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 458817006775 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 458817006776 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 458817006777 putative active site [active] 458817006778 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 458817006779 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 458817006780 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; cl15754 458817006781 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 458817006782 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 458817006783 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 458817006784 non-specific DNA binding site [nucleotide binding]; other site 458817006785 salt bridge; other site 458817006786 sequence-specific DNA binding site [nucleotide binding]; other site 458817006787 Protein of unknown function (DUF3612); Region: DUF3612; pfam12268 458817006788 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 458817006789 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 458817006790 Uncharacterized conserved protein [Function unknown]; Region: COG2850 458817006791 JmjC domain, hydroxylase; Region: JmjC; cl15814 458817006792 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 458817006793 active site 458817006794 substrate binding site [chemical binding]; other site 458817006795 catalytic site [active] 458817006796 Chemotaxis phosphatase CheX; Region: CheX; cl15816 458817006797 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 458817006798 Cache domain; Region: Cache_2; cl07034 458817006799 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 458817006800 dimerization interface [polypeptide binding]; other site 458817006801 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 458817006802 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817006803 dimer interface [polypeptide binding]; other site 458817006804 putative CheW interface [polypeptide binding]; other site 458817006805 Uncharacterized conserved protein [Function unknown]; Region: COG3603 458817006806 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 458817006807 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 458817006808 dimerization domain swap beta strand [polypeptide binding]; other site 458817006809 regulatory protein interface [polypeptide binding]; other site 458817006810 active site 458817006811 regulatory phosphorylation site [posttranslational modification]; other site 458817006812 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 458817006813 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 458817006814 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 458817006815 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 458817006816 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 458817006817 HPr interaction site; other site 458817006818 glycerol kinase (GK) interaction site [polypeptide binding]; other site 458817006819 active site 458817006820 phosphorylation site [posttranslational modification] 458817006821 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 458817006822 ArsC family; Region: ArsC; pfam03960 458817006823 putative catalytic residues [active] 458817006824 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 458817006825 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 458817006826 metal binding site [ion binding]; metal-binding site 458817006827 dimer interface [polypeptide binding]; other site 458817006828 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 458817006829 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 458817006830 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458817006831 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 458817006832 active site clefts [active] 458817006833 zinc binding site [ion binding]; other site 458817006834 dimer interface [polypeptide binding]; other site 458817006835 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 458817006836 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 458817006837 inhibitor-cofactor binding pocket; inhibition site 458817006838 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817006839 catalytic residue [active] 458817006840 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 458817006841 active site 458817006842 NAD binding site [chemical binding]; other site 458817006843 metal binding site [ion binding]; metal-binding site 458817006844 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 458817006845 Ligand binding site; other site 458817006846 oligomer interface; other site 458817006847 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 458817006848 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 458817006849 Protein export membrane protein; Region: SecD_SecF; cl14618 458817006850 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817006851 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817006852 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 458817006853 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 458817006854 dihydrodipicolinate synthase; Region: dapA; TIGR00674 458817006855 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 458817006856 dimer interface [polypeptide binding]; other site 458817006857 active site 458817006858 catalytic residue [active] 458817006859 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 458817006860 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 458817006861 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 458817006862 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 458817006863 catalytic triad [active] 458817006864 LysE type translocator; Region: LysE; cl00565 458817006865 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 458817006866 Helix-turn-helix domains; Region: HTH; cl00088 458817006867 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 458817006868 putative dimerization interface [polypeptide binding]; other site 458817006869 Domain of unknown function DUF20; Region: UPF0118; pfam01594 458817006870 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 458817006871 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 458817006872 CPxP motif; other site 458817006873 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 458817006874 Peptidase family M48; Region: Peptidase_M48; cl12018 458817006875 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 458817006876 binding surface 458817006877 TPR motif; other site 458817006878 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 458817006879 ArsC family; Region: ArsC; pfam03960 458817006880 catalytic residues [active] 458817006881 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 458817006882 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817006883 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 458817006884 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 458817006885 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 458817006886 uracil-xanthine permease; Region: ncs2; TIGR00801 458817006887 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 458817006888 putative GSH binding site [chemical binding]; other site 458817006889 catalytic residues [active] 458817006890 superoxide dismutase; Provisional; Region: PRK10543 458817006891 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 458817006892 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 458817006893 PrkA family serine protein kinase; Provisional; Region: PRK15455 458817006894 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817006895 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 458817006896 Uncharacterized conserved protein [Function unknown]; Region: COG2718 458817006897 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 458817006898 SpoVR family protein; Provisional; Region: PRK11767 458817006899 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 458817006900 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 458817006901 5S rRNA interface [nucleotide binding]; other site 458817006902 CTC domain interface [polypeptide binding]; other site 458817006903 L16 interface [polypeptide binding]; other site 458817006904 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 458817006905 Peptidase M15; Region: Peptidase_M15_3; cl01194 458817006906 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 458817006907 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 458817006908 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 458817006909 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 458817006910 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 458817006911 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 458817006912 GIY-YIG motif/motif A; other site 458817006913 active site 458817006914 catalytic site [active] 458817006915 putative DNA binding site [nucleotide binding]; other site 458817006916 metal binding site [ion binding]; metal-binding site 458817006917 UvrB/uvrC motif; Region: UVR; pfam02151 458817006918 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 458817006919 response regulator; Provisional; Region: PRK09483 458817006920 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817006921 active site 458817006922 phosphorylation site [posttranslational modification] 458817006923 intermolecular recognition site; other site 458817006924 dimerization interface [polypeptide binding]; other site 458817006925 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 458817006926 DNA binding residues [nucleotide binding] 458817006927 dimerization interface [polypeptide binding]; other site 458817006928 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 458817006929 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 458817006930 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 458817006931 active site 1 [active] 458817006932 dimer interface [polypeptide binding]; other site 458817006933 active site 2 [active] 458817006934 Ribosome modulation factor; Region: RMF; cl01207 458817006935 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 458817006936 ABC transporter ATPase component; Reviewed; Region: PRK11147 458817006937 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 458817006938 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 458817006939 ABC transporter; Region: ABC_tran_2; pfam12848 458817006940 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 458817006941 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 458817006942 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 458817006943 THUMP domain; Region: THUMP; cl12076 458817006944 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817006945 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 458817006946 S-adenosylmethionine binding site [chemical binding]; other site 458817006947 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 458817006948 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 458817006949 active site 458817006950 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 458817006951 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 458817006952 quinone interaction residues [chemical binding]; other site 458817006953 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 458817006954 active site 458817006955 catalytic residues [active] 458817006956 FMN binding site [chemical binding]; other site 458817006957 substrate binding site [chemical binding]; other site 458817006958 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 458817006959 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 458817006960 Protein export membrane protein; Region: SecD_SecF; cl14618 458817006961 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 458817006962 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 458817006963 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 458817006964 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 458817006965 aminopeptidase N; Provisional; Region: pepN; PRK14015 458817006966 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 458817006967 active site 458817006968 Zn binding site [ion binding]; other site 458817006969 carboxy-terminal protease; Provisional; Region: PRK11186 458817006970 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 458817006971 protein binding site [polypeptide binding]; other site 458817006972 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 458817006973 Catalytic dyad [active] 458817006974 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 458817006975 ProP expression regulator; Provisional; Region: PRK04950 458817006976 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 458817006977 putative RNA binding sites [nucleotide binding]; other site 458817006978 GAF domain; Region: GAF; cl15785 458817006979 YebG protein; Region: YebG; cl01217 458817006980 Paraquat-inducible protein A; Region: PqiA; pfam04403 458817006981 Paraquat-inducible protein A; Region: PqiA; pfam04403 458817006982 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 458817006983 mce related protein; Region: MCE; pfam02470 458817006984 mce related protein; Region: MCE; pfam02470 458817006985 mce related protein; Region: MCE; pfam02470 458817006986 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 458817006987 mce related protein; Region: MCE; pfam02470 458817006988 mce related protein; Region: MCE; pfam02470 458817006989 Nucleoside recognition; Region: Gate; cl00486 458817006990 Nucleoside recognition; Region: Gate; cl00486 458817006991 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 458817006992 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; cl15754 458817006993 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; cl01283 458817006994 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 458817006995 active site 458817006996 PilZ domain; Region: PilZ; cl01260 458817006997 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 458817006998 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817006999 thymidylate kinase; Validated; Region: tmk; PRK00698 458817007000 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 458817007001 TMP-binding site; other site 458817007002 ATP-binding site [chemical binding]; other site 458817007003 YceG-like family; Region: YceG; pfam02618 458817007004 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 458817007005 dimerization interface [polypeptide binding]; other site 458817007006 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 458817007007 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817007008 catalytic residue [active] 458817007009 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 458817007010 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 458817007011 ATP-binding site [chemical binding]; other site 458817007012 Sugar specificity; other site 458817007013 Pyrimidine base specificity; other site 458817007014 antiporter inner membrane protein; Provisional; Region: PRK11670 458817007015 Domain of unknown function DUF59; Region: DUF59; cl00941 458817007016 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 458817007017 Walker A motif; other site 458817007018 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 458817007019 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 458817007020 active site 458817007021 HIGH motif; other site 458817007022 KMSKS motif; other site 458817007023 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 458817007024 tRNA binding surface [nucleotide binding]; other site 458817007025 anticodon binding site; other site 458817007026 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 458817007027 dimer interface [polypeptide binding]; other site 458817007028 putative tRNA-binding site [nucleotide binding]; other site 458817007029 Uncharacterized conserved protein [Function unknown]; Region: COG0327 458817007030 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 458817007031 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 458817007032 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 458817007033 putative substrate translocation pore; other site 458817007034 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK08979 458817007035 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 458817007036 PYR/PP interface [polypeptide binding]; other site 458817007037 dimer interface [polypeptide binding]; other site 458817007038 TPP binding site [chemical binding]; other site 458817007039 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 458817007040 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 458817007041 TPP-binding site [chemical binding]; other site 458817007042 dimer interface [polypeptide binding]; other site 458817007043 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 458817007044 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 458817007045 putative valine binding site [chemical binding]; other site 458817007046 dimer interface [polypeptide binding]; other site 458817007047 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 458817007048 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 458817007049 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 458817007050 putative dimer interface [polypeptide binding]; other site 458817007051 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 458817007052 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 458817007053 active site 458817007054 metal binding site [ion binding]; metal-binding site 458817007055 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 458817007056 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 458817007057 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458817007058 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 458817007059 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 458817007060 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 458817007061 putative dimer interface [polypeptide binding]; other site 458817007062 N-terminal domain interface [polypeptide binding]; other site 458817007063 putative substrate binding pocket (H-site) [chemical binding]; other site 458817007064 Protein of unknown function (DUF3389); Region: DUF3389; pfam11869 458817007065 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 458817007066 Transglycosylase SLT domain; Region: SLT_2; pfam13406 458817007067 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 458817007068 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 458817007069 N-acetyl-D-glucosamine binding site [chemical binding]; other site 458817007070 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 458817007071 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 458817007072 FYVE zinc finger; Region: FYVE; pfam01363 458817007073 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 458817007074 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 458817007075 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817007076 active site 458817007077 phosphorylation site [posttranslational modification] 458817007078 intermolecular recognition site; other site 458817007079 dimerization interface [polypeptide binding]; other site 458817007080 Mechanosensitive ion channel; Region: MS_channel; pfam00924 458817007081 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 458817007082 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 458817007083 hypothetical protein; Provisional; Region: PRK11770 458817007084 Domain of unknown function (DUF307); Region: DUF307; pfam03733 458817007085 Domain of unknown function (DUF307); Region: DUF307; pfam03733 458817007086 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 458817007087 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 458817007088 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl15306 458817007089 substrate binding pocket [chemical binding]; other site 458817007090 membrane-bound complex binding site; other site 458817007091 hinge residues; other site 458817007092 Putative transmembrane protein (PGPGW); Region: PGPGW; cl09870 458817007093 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 458817007094 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817007095 Helix-turn-helix domains; Region: HTH; cl00088 458817007096 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 458817007097 dimerization interface [polypeptide binding]; other site 458817007098 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 458817007099 Cupin domain; Region: Cupin_2; cl09118 458817007100 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 458817007101 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 458817007102 dimer interface [polypeptide binding]; other site 458817007103 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 458817007104 active site 458817007105 Fe binding site [ion binding]; other site 458817007106 PAS fold; Region: PAS_4; pfam08448 458817007107 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 458817007108 putative active site [active] 458817007109 heme pocket [chemical binding]; other site 458817007110 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817007111 metal binding site [ion binding]; metal-binding site 458817007112 active site 458817007113 I-site; other site 458817007114 Putative transposase; Region: Y2_Tnp; pfam04986 458817007115 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 458817007116 active site 458817007117 Fe binding site [ion binding]; other site 458817007118 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 458817007119 LysE type translocator; Region: LysE; cl00565 458817007120 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 458817007121 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 458817007122 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 458817007123 active site 458817007124 tetramer interface [polypeptide binding]; other site 458817007125 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 458817007126 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 458817007127 putative substrate translocation pore; other site 458817007128 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 458817007129 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 458817007130 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 458817007131 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817007132 Walker A/P-loop; other site 458817007133 ATP binding site [chemical binding]; other site 458817007134 Q-loop/lid; other site 458817007135 ABC transporter signature motif; other site 458817007136 Walker B; other site 458817007137 D-loop; other site 458817007138 H-loop/switch region; other site 458817007139 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 458817007140 TM-ABC transporter signature motif; other site 458817007141 alpha-galactosidase; Provisional; Region: PRK15076 458817007142 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 458817007143 NAD binding site [chemical binding]; other site 458817007144 sugar binding site [chemical binding]; other site 458817007145 divalent metal binding site [ion binding]; other site 458817007146 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 458817007147 dimer interface [polypeptide binding]; other site 458817007148 PAS domain; Region: PAS_9; pfam13426 458817007149 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 458817007150 putative active site [active] 458817007151 heme pocket [chemical binding]; other site 458817007152 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 458817007153 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817007154 dimer interface [polypeptide binding]; other site 458817007155 putative CheW interface [polypeptide binding]; other site 458817007156 hypothetical protein; Provisional; Region: PRK06156 458817007157 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 458817007158 active site 458817007159 metal binding site [ion binding]; metal-binding site 458817007160 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 458817007161 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 458817007162 active site 458817007163 Zn binding site [ion binding]; other site 458817007164 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817007165 dUMP phosphatase; Provisional; Region: PRK09449 458817007166 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 458817007167 motif II; other site 458817007168 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 458817007169 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 458817007170 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 458817007171 active site 458817007172 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 458817007173 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 458817007174 active site 458817007175 phosphate binding residues; other site 458817007176 catalytic residues [active] 458817007177 Dicarboxylate transport; Region: DctA-YdbH; cl14674 458817007178 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 458817007179 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 458817007180 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 458817007181 GDYXXLXY protein; Region: GDYXXLXY; cl02066 458817007182 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 458817007183 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 458817007184 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 458817007185 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 458817007186 Ion channel; Region: Ion_trans_2; cl11596 458817007187 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 458817007188 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 458817007189 FtsX-like permease family; Region: FtsX; cl15850 458817007190 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817007191 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817007192 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817007193 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817007194 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 458817007195 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817007196 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 458817007197 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 458817007198 Walker A/P-loop; other site 458817007199 ATP binding site [chemical binding]; other site 458817007200 Q-loop/lid; other site 458817007201 ABC transporter signature motif; other site 458817007202 Walker B; other site 458817007203 D-loop; other site 458817007204 H-loop/switch region; other site 458817007205 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 458817007206 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 458817007207 putative FMN binding site [chemical binding]; other site 458817007208 DoxX; Region: DoxX; cl00976 458817007209 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 458817007210 active site 458817007211 ATP binding site [chemical binding]; other site 458817007212 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 458817007213 substrate binding site [chemical binding]; other site 458817007214 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 458817007215 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 458817007216 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 458817007217 N-terminal plug; other site 458817007218 ligand-binding site [chemical binding]; other site 458817007219 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 458817007220 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 458817007221 putative dimer interface [polypeptide binding]; other site 458817007222 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 458817007223 CoenzymeA binding site [chemical binding]; other site 458817007224 subunit interaction site [polypeptide binding]; other site 458817007225 PHB binding site; other site 458817007226 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 458817007227 CoenzymeA binding site [chemical binding]; other site 458817007228 subunit interaction site [polypeptide binding]; other site 458817007229 PHB binding site; other site 458817007230 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 458817007231 nucleotide binding site/active site [active] 458817007232 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 458817007233 Helix-turn-helix domains; Region: HTH; cl00088 458817007234 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 458817007235 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 458817007236 DNA binding residues [nucleotide binding] 458817007237 dimerization interface [polypeptide binding]; other site 458817007238 Peptidase family M48; Region: Peptidase_M48; cl12018 458817007239 AAA domain; Region: AAA_26; pfam13500 458817007240 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817007241 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 458817007242 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 458817007243 S-adenosylmethionine binding site [chemical binding]; other site 458817007244 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 458817007245 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 458817007246 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458817007247 catalytic residue [active] 458817007248 biotin synthase; Provisional; Region: PRK15108 458817007249 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 458817007250 FeS/SAM binding site; other site 458817007251 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 458817007252 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 458817007253 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 458817007254 inhibitor-cofactor binding pocket; inhibition site 458817007255 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817007256 catalytic residue [active] 458817007257 elongation factor G; Reviewed; Region: PRK00007 458817007258 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 458817007259 G1 box; other site 458817007260 putative GEF interaction site [polypeptide binding]; other site 458817007261 GTP/Mg2+ binding site [chemical binding]; other site 458817007262 Switch I region; other site 458817007263 G2 box; other site 458817007264 G3 box; other site 458817007265 Switch II region; other site 458817007266 G4 box; other site 458817007267 G5 box; other site 458817007268 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 458817007269 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 458817007270 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 458817007271 AAA domain; Region: AAA_33; pfam13671 458817007272 NAD-dependent deacetylase; Provisional; Region: PRK00481 458817007273 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 458817007274 NAD+ binding site [chemical binding]; other site 458817007275 substrate binding site [chemical binding]; other site 458817007276 Zn binding site [ion binding]; other site 458817007277 ferric uptake regulator; Provisional; Region: fur; PRK09462 458817007278 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 458817007279 metal binding site 2 [ion binding]; metal-binding site 458817007280 putative DNA binding helix; other site 458817007281 metal binding site 1 [ion binding]; metal-binding site 458817007282 dimer interface [polypeptide binding]; other site 458817007283 structural Zn2+ binding site [ion binding]; other site 458817007284 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 458817007285 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 458817007286 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 458817007287 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 458817007288 active site 458817007289 FMN binding site [chemical binding]; other site 458817007290 substrate binding site [chemical binding]; other site 458817007291 3Fe-4S cluster binding site [ion binding]; other site 458817007292 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 458817007293 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817007294 CoA-ligase; Region: Ligase_CoA; cl02894 458817007295 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 458817007296 ATP-grasp domain; Region: ATP-grasp_4; cl03087 458817007297 CoA-ligase; Region: Ligase_CoA; cl02894 458817007298 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 458817007299 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 458817007300 E3 interaction surface; other site 458817007301 lipoyl attachment site [posttranslational modification]; other site 458817007302 e3 binding domain; Region: E3_binding; pfam02817 458817007303 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 458817007304 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 458817007305 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 458817007306 TPP-binding site [chemical binding]; other site 458817007307 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 458817007308 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 458817007309 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; cl00159 458817007310 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 458817007311 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817007312 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 458817007313 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 458817007314 SdhC subunit interface [polypeptide binding]; other site 458817007315 proximal heme binding site [chemical binding]; other site 458817007316 cardiolipin binding site; other site 458817007317 Iron-sulfur protein interface; other site 458817007318 proximal quinone binding site [chemical binding]; other site 458817007319 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 458817007320 Iron-sulfur protein interface; other site 458817007321 proximal quinone binding site [chemical binding]; other site 458817007322 SdhD (CybS) interface [polypeptide binding]; other site 458817007323 proximal heme binding site [chemical binding]; other site 458817007324 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 458817007325 dimer interface [polypeptide binding]; other site 458817007326 Citrate synthase; Region: Citrate_synt; pfam00285 458817007327 active site 458817007328 citrylCoA binding site [chemical binding]; other site 458817007329 NADH binding [chemical binding]; other site 458817007330 cationic pore residues; other site 458817007331 oxalacetate/citrate binding site [chemical binding]; other site 458817007332 coenzyme A binding site [chemical binding]; other site 458817007333 catalytic triad [active] 458817007334 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817007335 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817007336 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817007337 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 458817007338 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 458817007339 Protein export membrane protein; Region: SecD_SecF; cl14618 458817007340 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 458817007341 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 458817007342 Walker A motif; other site 458817007343 ATP binding site [chemical binding]; other site 458817007344 Walker B motif; other site 458817007345 arginine finger; other site 458817007346 Helix-turn-helix domains; Region: HTH; cl00088 458817007347 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 458817007348 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 458817007349 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 458817007350 Predicted membrane protein [Function unknown]; Region: COG1470 458817007351 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 458817007352 Predicted membrane protein [Function unknown]; Region: COG1470 458817007353 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 458817007354 Trm112p-like protein; Region: Trm112p; cl01066 458817007355 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 458817007356 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 458817007357 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 458817007358 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 458817007359 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 458817007360 Walker A/P-loop; other site 458817007361 ATP binding site [chemical binding]; other site 458817007362 Q-loop/lid; other site 458817007363 ABC transporter signature motif; other site 458817007364 Walker B; other site 458817007365 D-loop; other site 458817007366 H-loop/switch region; other site 458817007367 ComEC family competence protein; Provisional; Region: PRK11539 458817007368 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 458817007369 Competence protein; Region: Competence; cl00471 458817007370 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 458817007371 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 458817007372 Peptidase family M23; Region: Peptidase_M23; pfam01551 458817007373 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 458817007374 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 458817007375 Nucleoid-associated protein [General function prediction only]; Region: COG3081 458817007376 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 458817007377 Protein of unknown function (DUF1414); Region: DUF1414; cl01175 458817007378 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 458817007379 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 458817007380 Sulfatase; Region: Sulfatase; cl10460 458817007381 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 458817007382 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817007383 metal binding site [ion binding]; metal-binding site 458817007384 active site 458817007385 I-site; other site 458817007386 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 458817007387 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 458817007388 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 458817007389 LysE type translocator; Region: LysE; cl00565 458817007390 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 458817007391 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817007392 active site 458817007393 phosphorylation site [posttranslational modification] 458817007394 intermolecular recognition site; other site 458817007395 dimerization interface [polypeptide binding]; other site 458817007396 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 458817007397 Walker A motif; other site 458817007398 ATP binding site [chemical binding]; other site 458817007399 Walker B motif; other site 458817007400 arginine finger; other site 458817007401 Helix-turn-helix domains; Region: HTH; cl00088 458817007402 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 458817007403 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 458817007404 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 458817007405 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 458817007406 ATP binding site [chemical binding]; other site 458817007407 Mg2+ binding site [ion binding]; other site 458817007408 G-X-G motif; other site 458817007409 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 458817007410 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 458817007411 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 458817007412 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 458817007413 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 458817007414 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 458817007415 Transposase; Region: DDE_Tnp_ISL3; pfam01610 458817007416 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 458817007417 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 458817007418 B12 binding site [chemical binding]; other site 458817007419 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 458817007420 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 458817007421 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 458817007422 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817007423 Walker A/P-loop; other site 458817007424 ATP binding site [chemical binding]; other site 458817007425 Q-loop/lid; other site 458817007426 ABC transporter signature motif; other site 458817007427 Walker B; other site 458817007428 D-loop; other site 458817007429 H-loop/switch region; other site 458817007430 NMT1-like family; Region: NMT1_2; cl15260 458817007431 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 458817007432 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 458817007433 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817007434 active site 458817007435 phosphorylation site [posttranslational modification] 458817007436 intermolecular recognition site; other site 458817007437 dimerization interface [polypeptide binding]; other site 458817007438 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 458817007439 DNA binding site [nucleotide binding] 458817007440 sensor protein PhoQ; Provisional; Region: PRK10815 458817007441 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 458817007442 ATP binding site [chemical binding]; other site 458817007443 Mg2+ binding site [ion binding]; other site 458817007444 G-X-G motif; other site 458817007445 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 458817007446 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 458817007447 Helix-turn-helix domains; Region: HTH; cl00088 458817007448 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 458817007449 putative substrate binding pocket [chemical binding]; other site 458817007450 putative dimerization interface [polypeptide binding]; other site 458817007451 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 458817007452 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 458817007453 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 458817007454 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 458817007455 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 458817007456 Zn2+ binding site [ion binding]; other site 458817007457 Mg2+ binding site [ion binding]; other site 458817007458 Protein of unknown function (DUF3135); Region: DUF3135; pfam11333 458817007459 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 458817007460 magnesium Mg(2+) and cobalt Co(2+) transport protein (corA); Region: corA; TIGR00383 458817007461 GPI transamidase subunit PIG-U; Region: PIG-U; cl08428 458817007462 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 458817007463 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 458817007464 Helix-turn-helix domains; Region: HTH; cl00088 458817007465 The C-terminal substrate binding domain of LysR-type transcriptional regulator XapR involved in xanthosine catabolism, contains the type 2 periplasmic binding fold; Region: PBP2_XapR; cd08449 458817007466 putative dimerization interface [polypeptide binding]; other site 458817007467 putative substrate binding pocket [chemical binding]; other site 458817007468 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 458817007469 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 458817007470 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 458817007471 Nucleoside recognition; Region: Gate; cl00486 458817007472 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 458817007473 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 458817007474 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 458817007475 active site 458817007476 motif I; other site 458817007477 motif II; other site 458817007478 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 458817007479 proline aminopeptidase P II; Provisional; Region: PRK10879 458817007480 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 458817007481 active site 458817007482 amino acid transporter; Region: 2A0306; TIGR00909 458817007483 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 458817007484 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817007485 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 458817007486 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817007487 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 458817007488 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 458817007489 Proline racemase; Region: Pro_racemase; pfam05544 458817007490 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 458817007491 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 458817007492 inhibitor site; inhibition site 458817007493 active site 458817007494 dimer interface [polypeptide binding]; other site 458817007495 catalytic residue [active] 458817007496 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 458817007497 Proline racemase; Region: Pro_racemase; pfam05544 458817007498 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 458817007499 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 458817007500 dimer interface [polypeptide binding]; other site 458817007501 NADP binding site [chemical binding]; other site 458817007502 catalytic residues [active] 458817007503 Transcriptional regulators [Transcription]; Region: GntR; COG1802 458817007504 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458817007505 DNA-binding site [nucleotide binding]; DNA binding site 458817007506 FCD domain; Region: FCD; cl11656 458817007507 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 458817007508 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 458817007509 dimer interface [polypeptide binding]; other site 458817007510 active site 458817007511 CoA binding pocket [chemical binding]; other site 458817007512 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 458817007513 Heme NO binding; Region: HNOB; cl15268 458817007514 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 458817007515 dimer interface [polypeptide binding]; other site 458817007516 phosphorylation site [posttranslational modification] 458817007517 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 458817007518 ATP binding site [chemical binding]; other site 458817007519 Mg2+ binding site [ion binding]; other site 458817007520 G-X-G motif; other site 458817007521 Response regulator receiver domain; Region: Response_reg; pfam00072 458817007522 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817007523 active site 458817007524 phosphorylation site [posttranslational modification] 458817007525 intermolecular recognition site; other site 458817007526 dimerization interface [polypeptide binding]; other site 458817007527 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 458817007528 active site 458817007529 substrate binding site [chemical binding]; other site 458817007530 catalytic site [active] 458817007531 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 458817007532 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 458817007533 ligand binding site [chemical binding]; other site 458817007534 flexible hinge region; other site 458817007535 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 458817007536 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 458817007537 metal binding triad; other site 458817007538 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 458817007539 Sodium:solute symporter family; Region: SSF; cl00456 458817007540 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 458817007541 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 458817007542 active site 458817007543 Predicted permeases [General function prediction only]; Region: RarD; COG2962 458817007544 EamA-like transporter family; Region: EamA; cl01037 458817007545 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 458817007546 substrate binding site [chemical binding]; other site 458817007547 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 458817007548 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 458817007549 catalytic residues [active] 458817007550 hinge region; other site 458817007551 alpha helical domain; other site 458817007552 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 458817007553 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 458817007554 putative NAD(P) binding site [chemical binding]; other site 458817007555 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 458817007556 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 458817007557 Zn2+ binding site [ion binding]; other site 458817007558 Mg2+ binding site [ion binding]; other site 458817007559 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 458817007560 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 458817007561 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 458817007562 nucleotide binding pocket [chemical binding]; other site 458817007563 K-X-D-G motif; other site 458817007564 catalytic site [active] 458817007565 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 458817007566 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 458817007567 Dimer interface [polypeptide binding]; other site 458817007568 BRCT sequence motif; other site 458817007569 cell division protein ZipA; Provisional; Region: PRK03427 458817007570 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 458817007571 FtsZ protein binding site [polypeptide binding]; other site 458817007572 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 458817007573 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 458817007574 Walker A/P-loop; other site 458817007575 ATP binding site [chemical binding]; other site 458817007576 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 458817007577 ABC transporter signature motif; other site 458817007578 Walker B; other site 458817007579 D-loop; other site 458817007580 H-loop/switch region; other site 458817007581 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 458817007582 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 458817007583 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817007584 active site 458817007585 phosphorylation site [posttranslational modification] 458817007586 intermolecular recognition site; other site 458817007587 dimerization interface [polypeptide binding]; other site 458817007588 Response regulator receiver domain; Region: Response_reg; pfam00072 458817007589 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817007590 active site 458817007591 phosphorylation site [posttranslational modification] 458817007592 intermolecular recognition site; other site 458817007593 dimerization interface [polypeptide binding]; other site 458817007594 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817007595 metal binding site [ion binding]; metal-binding site 458817007596 active site 458817007597 I-site; other site 458817007598 RDD family; Region: RDD; cl00746 458817007599 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 458817007600 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 458817007601 dimer interface [polypeptide binding]; other site 458817007602 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817007603 catalytic residue [active] 458817007604 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 458817007605 Helix-turn-helix domains; Region: HTH; cl00088 458817007606 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817007607 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 458817007608 gating phenylalanine in ion channel; other site 458817007609 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 458817007610 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 458817007611 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 458817007612 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 458817007613 Sodium:solute symporter family; Region: SSF; cl00456 458817007614 putative transporter; Provisional; Region: PRK10484 458817007615 Protein of unknown function (DUF997); Region: DUF997; cl01614 458817007616 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 458817007617 Helix-turn-helix domains; Region: HTH; cl00088 458817007618 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 458817007619 putative dimerization interface [polypeptide binding]; other site 458817007620 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 458817007621 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 458817007622 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 458817007623 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 458817007624 Pyruvate formate lyase 1; Region: PFL1; cd01678 458817007625 coenzyme A binding site [chemical binding]; other site 458817007626 active site 458817007627 catalytic residues [active] 458817007628 glycine loop; other site 458817007629 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 458817007630 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 458817007631 FeS/SAM binding site; other site 458817007632 Protein of unknown function, DUF412; Region: DUF412; cl01183 458817007633 propionate/acetate kinase; Provisional; Region: PRK12379 458817007634 Acetokinase family; Region: Acetate_kinase; cl01029 458817007635 phosphate acetyltransferase; Reviewed; Region: PRK05632 458817007636 DRTGG domain; Region: DRTGG; cl12147 458817007637 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 458817007638 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 458817007639 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 458817007640 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 458817007641 S-adenosylmethionine binding site [chemical binding]; other site 458817007642 Domain of unknown function DUF20; Region: UPF0118; pfam01594 458817007643 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 458817007644 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 458817007645 homooctamer interface [polypeptide binding]; other site 458817007646 active site 458817007647 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 458817007648 TIGR01777 family protein; Region: yfcH 458817007649 putative NAD(P) binding site [chemical binding]; other site 458817007650 putative active site [active] 458817007651 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 458817007652 FtsX-like permease family; Region: FtsX; cl15850 458817007653 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 458817007654 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 458817007655 Walker A/P-loop; other site 458817007656 ATP binding site [chemical binding]; other site 458817007657 Q-loop/lid; other site 458817007658 ABC transporter signature motif; other site 458817007659 Walker B; other site 458817007660 D-loop; other site 458817007661 H-loop/switch region; other site 458817007662 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 458817007663 active site 458817007664 catalytic triad [active] 458817007665 oxyanion hole [active] 458817007666 switch loop; other site 458817007667 Protein of unknown function, DUF481; Region: DUF481; cl01213 458817007668 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 458817007669 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 458817007670 Cytochrome c; Region: Cytochrom_C; cl11414 458817007671 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 458817007672 Cytochrome c; Region: Cytochrom_C; cl11414 458817007673 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 458817007674 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 458817007675 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 458817007676 hypothetical protein; Provisional; Region: PRK08317 458817007677 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 458817007678 S-adenosylmethionine binding site [chemical binding]; other site 458817007679 Helix-turn-helix domains; Region: HTH; cl00088 458817007680 Winged helix-turn helix; Region: HTH_29; pfam13551 458817007681 Helix-turn-helix domains; Region: HTH; cl00088 458817007682 Integrase core domain; Region: rve; cl01316 458817007683 Helix-turn-helix domains; Region: HTH; cl00088 458817007684 Winged helix-turn helix; Region: HTH_29; pfam13551 458817007685 Helix-turn-helix domains; Region: HTH; cl00088 458817007686 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 458817007687 putative inner membrane peptidase; Provisional; Region: PRK11778 458817007688 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 458817007689 tandem repeat interface [polypeptide binding]; other site 458817007690 oligomer interface [polypeptide binding]; other site 458817007691 active site residues [active] 458817007692 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 458817007693 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 458817007694 short chain dehydrogenase; Provisional; Region: PRK08703 458817007695 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817007696 NAD(P) binding site [chemical binding]; other site 458817007697 active site 458817007698 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 458817007699 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 458817007700 RNA binding surface [nucleotide binding]; other site 458817007701 PseudoU_synth_RluB: Pseudouridine synthase, Escherichia coli RluB like. This group is comprised of bacterial and eukaryotic proteins similar to E. coli RluB. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluB; cd02556 458817007702 probable active site [active] 458817007703 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 458817007704 ScpA/B protein; Region: ScpA_ScpB; cl00598 458817007705 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 458817007706 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 458817007707 Gram-negative bacterial tonB protein; Region: TonB; cl10048 458817007708 Intracellular septation protein A; Region: IspA; cl01098 458817007709 YCII-related domain; Region: YCII; cl00999 458817007710 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 458817007711 putative phosphate binding site [ion binding]; other site 458817007712 putative catalytic site [active] 458817007713 active site 458817007714 metal binding site A [ion binding]; metal-binding site 458817007715 DNA binding site [nucleotide binding] 458817007716 putative AP binding site [nucleotide binding]; other site 458817007717 putative metal binding site B [ion binding]; other site 458817007718 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 458817007719 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 458817007720 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817007721 dimer interface [polypeptide binding]; other site 458817007722 putative CheW interface [polypeptide binding]; other site 458817007723 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 458817007724 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 458817007725 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 458817007726 Domain of unknown function (DUF4250); Region: DUF4250; pfam14056 458817007727 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 458817007728 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 458817007729 dimer interface [polypeptide binding]; other site 458817007730 active site 458817007731 Helix-turn-helix domains; Region: HTH; cl00088 458817007732 Cache domain; Region: Cache_1; pfam02743 458817007733 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 458817007734 dimerization interface [polypeptide binding]; other site 458817007735 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 458817007736 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817007737 dimer interface [polypeptide binding]; other site 458817007738 putative CheW interface [polypeptide binding]; other site 458817007739 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 458817007740 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 458817007741 DNA topoisomerase III; Provisional; Region: PRK07726 458817007742 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 458817007743 active site 458817007744 putative interdomain interaction site [polypeptide binding]; other site 458817007745 putative metal-binding site [ion binding]; other site 458817007746 putative nucleotide binding site [chemical binding]; other site 458817007747 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 458817007748 domain I; other site 458817007749 DNA binding groove [nucleotide binding] 458817007750 phosphate binding site [ion binding]; other site 458817007751 domain II; other site 458817007752 domain III; other site 458817007753 nucleotide binding site [chemical binding]; other site 458817007754 catalytic site [active] 458817007755 domain IV; other site 458817007756 amidophosphoribosyltransferase; Provisional; Region: PRK09246 458817007757 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 458817007758 active site 458817007759 tetramer interface [polypeptide binding]; other site 458817007760 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 458817007761 active site 458817007762 Colicin V production protein; Region: Colicin_V; cl00567 458817007763 cell division protein DedD; Provisional; Region: PRK11633 458817007764 Sporulation related domain; Region: SPOR; cl10051 458817007765 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 458817007766 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 458817007767 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 458817007768 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 458817007769 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 458817007770 dimerization interface 3.5A [polypeptide binding]; other site 458817007771 active site 458817007772 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 458817007773 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 458817007774 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 458817007775 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817007776 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 458817007777 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 458817007778 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817007779 Domain of unknown function (DUF3410); Region: DUF3410; pfam11890 458817007780 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 458817007781 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817007782 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 458817007783 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 1; Region: PLPDE_III_DSD_D-TA_like_1; cd06812 458817007784 dimer interface [polypeptide binding]; other site 458817007785 active site 458817007786 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 458817007787 substrate binding site [chemical binding]; other site 458817007788 catalytic residue [active] 458817007789 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817007790 Helix-turn-helix domains; Region: HTH; cl00088 458817007791 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 458817007792 dimerization interface [polypeptide binding]; other site 458817007793 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_19; cd04678 458817007794 nudix motif; other site 458817007795 sensory histidine kinase AtoS; Provisional; Region: PRK11360 458817007796 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817007797 metal binding site [ion binding]; metal-binding site 458817007798 active site 458817007799 I-site; other site 458817007800 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 458817007801 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 458817007802 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 458817007803 Sulphate Transporter and Anti-Sigma factor antagonist domain of the 'stressosome' complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 458817007804 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 458817007805 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 458817007806 dimer interface [polypeptide binding]; other site 458817007807 active site 458817007808 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 458817007809 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 458817007810 YfcL protein; Region: YfcL; pfam08891 458817007811 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 458817007812 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 458817007813 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 458817007814 putative substrate translocation pore; other site 458817007815 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 458817007816 Tetramer interface [polypeptide binding]; other site 458817007817 active site 458817007818 FMN-binding site [chemical binding]; other site 458817007819 HemK family putative methylases; Region: hemK_fam; TIGR00536 458817007820 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 458817007821 S-adenosylmethionine binding site [chemical binding]; other site 458817007822 hypothetical protein; Provisional; Region: PRK04946 458817007823 Smr domain; Region: Smr; cl02619 458817007824 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 458817007825 catalytic core [active] 458817007826 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 458817007827 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 458817007828 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 458817007829 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 458817007830 Two component regulator propeller; Region: Reg_prop; pfam07494 458817007831 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 458817007832 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 458817007833 PAS fold; Region: PAS_3; pfam08447 458817007834 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 458817007835 PAS domain; Region: PAS_9; pfam13426 458817007836 putative active site [active] 458817007837 heme pocket [chemical binding]; other site 458817007838 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817007839 metal binding site [ion binding]; metal-binding site 458817007840 active site 458817007841 I-site; other site 458817007842 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 458817007843 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 458817007844 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 458817007845 substrate binding site [chemical binding]; other site 458817007846 oxyanion hole (OAH) forming residues; other site 458817007847 trimer interface [polypeptide binding]; other site 458817007848 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817007849 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 458817007850 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 458817007851 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 458817007852 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 458817007853 dimer interface [polypeptide binding]; other site 458817007854 active site 458817007855 MoxR-like ATPases [General function prediction only]; Region: COG0714 458817007856 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 458817007857 Walker A motif; other site 458817007858 ATP binding site [chemical binding]; other site 458817007859 Walker B motif; other site 458817007860 arginine finger; other site 458817007861 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 458817007862 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 458817007863 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 458817007864 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 458817007865 metal ion-dependent adhesion site (MIDAS); other site 458817007866 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 458817007867 metal ion-dependent adhesion site (MIDAS); other site 458817007868 Tetratricopeptide repeat; Region: TPR_16; pfam13432 458817007869 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 458817007870 TPR motif; other site 458817007871 binding surface 458817007872 Oxygen tolerance; Region: BatD; pfam13584 458817007873 RNA polymerase sigma factor; Provisional; Region: PRK12517 458817007874 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 458817007875 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 458817007876 DNA binding residues [nucleotide binding] 458817007877 Protein of unknown function (DUF3379); Region: DUF3379; pfam11859 458817007878 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 458817007879 Sodium:solute symporter family; Region: SSF; cl00456 458817007880 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 458817007881 Protein of unknown function (DUF541); Region: SIMPL; cl01077 458817007882 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817007883 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817007884 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 458817007885 Protein export membrane protein; Region: SecD_SecF; cl14618 458817007886 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 458817007887 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 458817007888 active site residue [active] 458817007889 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 458817007890 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 458817007891 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 458817007892 dimerization interface [polypeptide binding]; other site 458817007893 active site 458817007894 Protein of unknown function (DUF2810); Region: DUF2810; cl08159 458817007895 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 458817007896 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 458817007897 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 458817007898 ATP cone domain; Region: ATP-cone; pfam03477 458817007899 Class III ribonucleotide reductase; Region: RNR_III; cd01675 458817007900 effector binding site; other site 458817007901 active site 458817007902 Zn binding site [ion binding]; other site 458817007903 glycine loop; other site 458817007904 hypothetical protein; Provisional; Region: PRK10279 458817007905 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 458817007906 active site 458817007907 nucleophile elbow; other site 458817007908 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 458817007909 DEAD-like helicases superfamily; Region: DEXDc; smart00487 458817007910 ATP binding site [chemical binding]; other site 458817007911 Mg++ binding site [ion binding]; other site 458817007912 motif III; other site 458817007913 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 458817007914 nucleotide binding region [chemical binding]; other site 458817007915 ATP-binding site [chemical binding]; other site 458817007916 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 458817007917 Protein of unknown function DUF45; Region: DUF45; cl00636 458817007918 Domain of unknown function DUF21; Region: DUF21; pfam01595 458817007919 hypothetical protein; Provisional; Region: PRK11573 458817007920 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 458817007921 Transporter associated domain; Region: CorC_HlyC; cl08393 458817007922 Domain of unknown function DUF21; Region: DUF21; pfam01595 458817007923 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 458817007924 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 458817007925 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 458817007926 putative peptidase; Provisional; Region: PRK11649 458817007927 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 458817007928 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 458817007929 Walker A/P-loop; other site 458817007930 ATP binding site [chemical binding]; other site 458817007931 Q-loop/lid; other site 458817007932 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 458817007933 ABC transporter signature motif; other site 458817007934 Walker B; other site 458817007935 D-loop; other site 458817007936 H-loop/switch region; other site 458817007937 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 458817007938 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 458817007939 active site 458817007940 metal binding site [ion binding]; metal-binding site 458817007941 DNA binding site [nucleotide binding] 458817007942 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 458817007943 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 458817007944 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 458817007945 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817007946 homodimer interface [polypeptide binding]; other site 458817007947 catalytic residue [active] 458817007948 putative transporter; Provisional; Region: PRK03699 458817007949 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 458817007950 putative substrate translocation pore; other site 458817007951 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 458817007952 Glutaminase; Region: Glutaminase; cl00907 458817007953 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 458817007954 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 458817007955 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 458817007956 Helix-turn-helix domains; Region: HTH; cl00088 458817007957 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 458817007958 dimerization interface [polypeptide binding]; other site 458817007959 Restriction endonuclease; Region: Mrr_cat; cl00516 458817007960 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 458817007961 ATP binding site [chemical binding]; other site 458817007962 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 458817007963 substrate binding site [chemical binding]; other site 458817007964 activation loop (A-loop); other site 458817007965 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 458817007966 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 458817007967 RNA binding surface [nucleotide binding]; other site 458817007968 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 458817007969 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 458817007970 PPIC-type PPIASE domain; Region: Rotamase; cl08278 458817007971 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 458817007972 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817007973 metal binding site [ion binding]; metal-binding site 458817007974 active site 458817007975 I-site; other site 458817007976 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 458817007977 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 458817007978 TPR motif; other site 458817007979 binding surface 458817007980 Gram-negative bacterial tonB protein; Region: TonB; cl10048 458817007981 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 458817007982 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 458817007983 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 458817007984 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 458817007985 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 458817007986 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 458817007987 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 458817007988 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 458817007989 trimer interface [polypeptide binding]; other site 458817007990 eyelet of channel; other site 458817007991 DNA polymerase II; Reviewed; Region: PRK05762 458817007992 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 458817007993 active site 458817007994 catalytic site [active] 458817007995 substrate binding site [chemical binding]; other site 458817007996 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 458817007997 active site 458817007998 metal-binding site 458817007999 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 458817008000 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817008001 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817008002 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 458817008003 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 458817008004 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 458817008005 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 458817008006 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 458817008007 Late competence development protein ComFB; Region: ComFB; pfam10719 458817008008 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458817008009 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 458817008010 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 458817008011 Major Facilitator Superfamily; Region: MFS_1; pfam07690 458817008012 putative substrate translocation pore; other site 458817008013 phosphate acetyltransferase; Reviewed; Region: PRK05632 458817008014 DRTGG domain; Region: DRTGG; cl12147 458817008015 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 458817008016 propionate/acetate kinase; Provisional; Region: PRK12379 458817008017 Acetokinase family; Region: Acetate_kinase; cl01029 458817008018 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 458817008019 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 458817008020 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817008021 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 458817008022 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 458817008023 dimer interaction site [polypeptide binding]; other site 458817008024 substrate-binding tunnel; other site 458817008025 active site 458817008026 catalytic site [active] 458817008027 substrate binding site [chemical binding]; other site 458817008028 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 458817008029 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 458817008030 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 458817008031 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458817008032 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 458817008033 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 458817008034 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458817008035 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817008036 Helix-turn-helix domains; Region: HTH; cl00088 458817008037 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 458817008038 putative effector binding pocket; other site 458817008039 dimerization interface [polypeptide binding]; other site 458817008040 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 458817008041 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 458817008042 NAD(P) binding site [chemical binding]; other site 458817008043 homotetramer interface [polypeptide binding]; other site 458817008044 homodimer interface [polypeptide binding]; other site 458817008045 active site 458817008046 putative acyltransferase; Provisional; Region: PRK05790 458817008047 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 458817008048 dimer interface [polypeptide binding]; other site 458817008049 active site 458817008050 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 458817008051 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 458817008052 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 458817008053 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 458817008054 transmembrane helices; other site 458817008055 methionine gamma-lyase; Provisional; Region: PRK06234 458817008056 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 458817008057 homodimer interface [polypeptide binding]; other site 458817008058 substrate-cofactor binding pocket; other site 458817008059 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817008060 catalytic residue [active] 458817008061 hypothetical protein; Provisional; Region: PRK05415 458817008062 Domain of unknown function (DUF697); Region: DUF697; cl12064 458817008063 YcjX-like family, DUF463; Region: DUF463; cl01193 458817008064 PspC domain; Region: PspC; cl00864 458817008065 phage shock protein C; Region: phageshock_pspC; TIGR02978 458817008066 Phage shock protein B; Region: PspB; cl05946 458817008067 phage shock protein A; Region: phageshock_pspA; TIGR02977 458817008068 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 458817008069 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 458817008070 Walker A motif; other site 458817008071 ATP binding site [chemical binding]; other site 458817008072 Walker B motif; other site 458817008073 arginine finger; other site 458817008074 Helix-turn-helix domains; Region: HTH; cl00088 458817008075 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 458817008076 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 458817008077 peptide binding site [polypeptide binding]; other site 458817008078 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 458817008079 dimer interface [polypeptide binding]; other site 458817008080 conserved gate region; other site 458817008081 putative PBP binding loops; other site 458817008082 ABC-ATPase subunit interface; other site 458817008083 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 458817008084 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 458817008085 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 458817008086 dimer interface [polypeptide binding]; other site 458817008087 conserved gate region; other site 458817008088 putative PBP binding loops; other site 458817008089 ABC-ATPase subunit interface; other site 458817008090 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 458817008091 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 458817008092 Walker A/P-loop; other site 458817008093 ATP binding site [chemical binding]; other site 458817008094 Q-loop/lid; other site 458817008095 ABC transporter signature motif; other site 458817008096 Walker B; other site 458817008097 D-loop; other site 458817008098 H-loop/switch region; other site 458817008099 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 458817008100 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 458817008101 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 458817008102 Walker A/P-loop; other site 458817008103 ATP binding site [chemical binding]; other site 458817008104 Q-loop/lid; other site 458817008105 ABC transporter signature motif; other site 458817008106 Walker B; other site 458817008107 D-loop; other site 458817008108 H-loop/switch region; other site 458817008109 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 458817008110 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 458817008111 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 458817008112 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817008113 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 458817008114 periplasmic folding chaperone; Provisional; Region: PRK10788 458817008115 SurA N-terminal domain; Region: SurA_N_3; cl07813 458817008116 PPIC-type PPIASE domain; Region: Rotamase; cl08278 458817008117 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 458817008118 IHF dimer interface [polypeptide binding]; other site 458817008119 IHF - DNA interface [nucleotide binding]; other site 458817008120 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 458817008121 Found in ATP-dependent protease La (LON); Region: LON; smart00464 458817008122 Found in ATP-dependent protease La (LON); Region: LON; smart00464 458817008123 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 458817008124 Walker A motif; other site 458817008125 ATP binding site [chemical binding]; other site 458817008126 Walker B motif; other site 458817008127 arginine finger; other site 458817008128 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 458817008129 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 458817008130 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 458817008131 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 458817008132 Walker A motif; other site 458817008133 ATP binding site [chemical binding]; other site 458817008134 Walker B motif; other site 458817008135 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 458817008136 Clp protease; Region: CLP_protease; pfam00574 458817008137 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 458817008138 oligomer interface [polypeptide binding]; other site 458817008139 active site residues [active] 458817008140 trigger factor; Provisional; Region: tig; PRK01490 458817008141 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 458817008142 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 458817008143 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 458817008144 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 458817008145 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 458817008146 homodimer interface [polypeptide binding]; other site 458817008147 NADP binding site [chemical binding]; other site 458817008148 substrate binding site [chemical binding]; other site 458817008149 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 458817008150 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 458817008151 active site 458817008152 HIGH motif; other site 458817008153 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 458817008154 KMSKS motif; other site 458817008155 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 458817008156 tRNA binding surface [nucleotide binding]; other site 458817008157 anticodon binding site; other site 458817008158 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 458817008159 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 458817008160 substrate binding site [chemical binding]; other site 458817008161 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 458817008162 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 458817008163 putative active site [active] 458817008164 putative metal binding site [ion binding]; other site 458817008165 Yip1 domain; Region: Yip1; cl12048 458817008166 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 458817008167 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 458817008168 active site 458817008169 HIGH motif; other site 458817008170 nucleotide binding site [chemical binding]; other site 458817008171 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 458817008172 KMSKS motif; other site 458817008173 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 458817008174 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 458817008175 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 458817008176 G1 box; other site 458817008177 GTP/Mg2+ binding site [chemical binding]; other site 458817008178 Switch I region; other site 458817008179 G2 box; other site 458817008180 G3 box; other site 458817008181 Switch II region; other site 458817008182 G4 box; other site 458817008183 G5 box; other site 458817008184 Nucleoside recognition; Region: Gate; cl00486 458817008185 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 458817008186 Nucleoside recognition; Region: Gate; cl00486 458817008187 FeoA domain; Region: FeoA; cl00838 458817008188 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 458817008189 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 458817008190 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 458817008191 Protein of unknown function (DUF3374); Region: DUF3374; cl11904 458817008192 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 458817008193 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 458817008194 heme-binding residues [chemical binding]; other site 458817008195 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 458817008196 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 458817008197 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 458817008198 tail sheath stabilizer and completion protein; Provisional; Region: 15; PHA02556 458817008199 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 458817008200 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 458817008201 heme-binding residues [chemical binding]; other site 458817008202 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 458817008203 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 458817008204 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 458817008205 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 458817008206 Protein of unknown function (DUF3374); Region: DUF3374; cl11904 458817008207 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 458817008208 putative uracil binding site [chemical binding]; other site 458817008209 putative active site [active] 458817008210 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 458817008211 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 458817008212 Helix-turn-helix domains; Region: HTH; cl00088 458817008213 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 458817008214 outer membrane protein A; Reviewed; Region: PRK10808 458817008215 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 458817008216 ligand binding site [chemical binding]; other site 458817008217 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 458817008218 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 458817008219 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 458817008220 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 458817008221 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 458817008222 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 458817008223 Glycerate kinase family; Region: Gly_kinase; cl00841 458817008224 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 458817008225 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 458817008226 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458817008227 catalytic residue [active] 458817008228 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 458817008229 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 458817008230 S-adenosylmethionine binding site [chemical binding]; other site 458817008231 LPP20 lipoprotein; Region: LPP20; cl15824 458817008232 LPP20 lipoprotein; Region: LPP20; cl15824 458817008233 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 458817008234 N-acetyl-D-glucosamine binding site [chemical binding]; other site 458817008235 catalytic residue [active] 458817008236 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 458817008237 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 458817008238 active site 458817008239 substrate binding site [chemical binding]; other site 458817008240 metal binding site [ion binding]; metal-binding site 458817008241 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 458817008242 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 458817008243 active site 458817008244 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 458817008245 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 458817008246 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 458817008247 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 458817008248 putative N-terminal domain interface [polypeptide binding]; other site 458817008249 putative dimer interface [polypeptide binding]; other site 458817008250 putative substrate binding pocket (H-site) [chemical binding]; other site 458817008251 Mechanosensitive ion channel; Region: MS_channel; pfam00924 458817008252 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817008253 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 458817008254 NAD(P) binding site [chemical binding]; other site 458817008255 active site 458817008256 peptide synthase; Provisional; Region: PRK09274 458817008257 AMP-binding enzyme; Region: AMP-binding; cl15778 458817008258 haloalkane dehalogenase; Provisional; Region: PRK03592 458817008259 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458817008260 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09258 458817008261 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 458817008262 dimer interface [polypeptide binding]; other site 458817008263 active site 458817008264 CoA binding pocket [chemical binding]; other site 458817008265 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817008266 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 458817008267 hypothetical protein; Provisional; Region: PRK11295 458817008268 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 458817008269 BCCT family transporter; Region: BCCT; cl00569 458817008270 transcriptional regulator PhoU; Provisional; Region: PRK11115 458817008271 PhoU domain; Region: PhoU; pfam01895 458817008272 PhoU domain; Region: PhoU; pfam01895 458817008273 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 458817008274 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 458817008275 Walker A/P-loop; other site 458817008276 ATP binding site [chemical binding]; other site 458817008277 Q-loop/lid; other site 458817008278 ABC transporter signature motif; other site 458817008279 Walker B; other site 458817008280 D-loop; other site 458817008281 H-loop/switch region; other site 458817008282 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 458817008283 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 458817008284 dimer interface [polypeptide binding]; other site 458817008285 conserved gate region; other site 458817008286 putative PBP binding loops; other site 458817008287 ABC-ATPase subunit interface; other site 458817008288 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 458817008289 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 458817008290 conserved gate region; other site 458817008291 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 458817008292 ABC-ATPase subunit interface; other site 458817008293 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 458817008294 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 458817008295 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 458817008296 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817008297 metal binding site [ion binding]; metal-binding site 458817008298 active site 458817008299 I-site; other site 458817008300 alanine racemase; Reviewed; Region: PRK13340 458817008301 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme, Alanine Racemase 2; Region: PLPDE_III_AR2; cd06826 458817008302 active site 458817008303 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 458817008304 dimer interface [polypeptide binding]; other site 458817008305 substrate binding site [chemical binding]; other site 458817008306 catalytic residues [active] 458817008307 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 458817008308 Helix-turn-helix domains; Region: HTH; cl00088 458817008309 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 458817008310 cryptic adenine deaminase; Provisional; Region: PRK10027 458817008311 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 458817008312 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 458817008313 active site 458817008314 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 458817008315 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 458817008316 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 458817008317 Peptidase family M9 N-terminal; Region: Peptidase_M9_N; pfam08453 458817008318 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 458817008319 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 458817008320 LysE type translocator; Region: LysE; cl00565 458817008321 Protein of unknown function (DUF1415); Region: DUF1415; cl01301 458817008322 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 458817008323 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 458817008324 active site 458817008325 RNA/DNA hybrid binding site [nucleotide binding]; other site 458817008326 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 458817008327 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 458817008328 interface (dimer of trimers) [polypeptide binding]; other site 458817008329 Substrate-binding/catalytic site; other site 458817008330 Zn-binding sites [ion binding]; other site 458817008331 ApbE family; Region: ApbE; cl00643 458817008332 FMN-binding domain; Region: FMN_bind; cl01081 458817008333 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 458817008334 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817008335 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 458817008336 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 458817008337 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 458817008338 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817008339 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 458817008340 active site 458817008341 phosphorylation site [posttranslational modification] 458817008342 intermolecular recognition site; other site 458817008343 dimerization interface [polypeptide binding]; other site 458817008344 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 458817008345 DNA binding site [nucleotide binding] 458817008346 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 458817008347 dimerization interface [polypeptide binding]; other site 458817008348 DNA binding residues [nucleotide binding] 458817008349 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; cl09210 458817008350 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 458817008351 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 458817008352 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 458817008353 Nucleoside recognition; Region: Gate; cl00486 458817008354 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 458817008355 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 458817008356 universal stress protein UspE; Provisional; Region: PRK11175 458817008357 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 458817008358 Ligand Binding Site [chemical binding]; other site 458817008359 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 458817008360 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 458817008361 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 458817008362 Helix-turn-helix domains; Region: HTH; cl00088 458817008363 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 458817008364 dimerization interface [polypeptide binding]; other site 458817008365 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 458817008366 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458817008367 putative metal dependent hydrolase; Provisional; Region: PRK11598 458817008368 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 458817008369 Sulfatase; Region: Sulfatase; cl10460 458817008370 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 458817008371 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817008372 Walker A/P-loop; other site 458817008373 ATP binding site [chemical binding]; other site 458817008374 Q-loop/lid; other site 458817008375 ABC transporter signature motif; other site 458817008376 Walker B; other site 458817008377 D-loop; other site 458817008378 H-loop/switch region; other site 458817008379 ABC transporter; Region: ABC_tran_2; pfam12848 458817008380 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 458817008381 copper exporting ATPase; Provisional; Region: copA; PRK10671 458817008382 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 458817008383 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 458817008384 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 458817008385 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 458817008386 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 458817008387 DNA binding residues [nucleotide binding] 458817008388 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 458817008389 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458817008390 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817008391 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 458817008392 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817008393 NAD(P) binding site [chemical binding]; other site 458817008394 active site 458817008395 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817008396 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 458817008397 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 458817008398 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 458817008399 substrate binding site [chemical binding]; other site 458817008400 oxyanion hole (OAH) forming residues; other site 458817008401 trimer interface [polypeptide binding]; other site 458817008402 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; cl15762 458817008403 enoyl-CoA hydratase; Provisional; Region: PRK09076 458817008404 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 458817008405 substrate binding site [chemical binding]; other site 458817008406 oxyanion hole (OAH) forming residues; other site 458817008407 trimer interface [polypeptide binding]; other site 458817008408 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 458817008409 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 458817008410 active site 458817008411 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 458817008412 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 458817008413 tetrameric interface [polypeptide binding]; other site 458817008414 NAD binding site [chemical binding]; other site 458817008415 catalytic residues [active] 458817008416 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 458817008417 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 458817008418 dimer interface [polypeptide binding]; other site 458817008419 active site 458817008420 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 458817008421 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 458817008422 DNA binding residues [nucleotide binding] 458817008423 dimerization interface [polypeptide binding]; other site 458817008424 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 458817008425 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 458817008426 homoserine O-succinyltransferase; Provisional; Region: PRK05368 458817008427 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 458817008428 proposed active site lysine [active] 458817008429 conserved cys residue [active] 458817008430 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 458817008431 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 458817008432 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817008433 NAD(P) binding site [chemical binding]; other site 458817008434 active site 458817008435 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 458817008436 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817008437 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817008438 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817008439 multidrug efflux protein; Reviewed; Region: PRK09579 458817008440 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817008441 Helix-turn-helix domains; Region: HTH; cl00088 458817008442 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 458817008443 putative effector binding pocket; other site 458817008444 dimerization interface [polypeptide binding]; other site 458817008445 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 458817008446 substrate binding site [chemical binding]; other site 458817008447 oxyanion hole (OAH) forming residues; other site 458817008448 trimer interface [polypeptide binding]; other site 458817008449 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 458817008450 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 458817008451 FeS/SAM binding site; other site 458817008452 Bacterial protein of unknown function (DUF925); Region: DUF925; cl01435 458817008453 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 458817008454 acyl-CoA thioesterase II; Provisional; Region: PRK10526 458817008455 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 458817008456 active site 458817008457 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 458817008458 catalytic triad [active] 458817008459 dimer interface [polypeptide binding]; other site 458817008460 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817008461 acetoacetyl-CoA reductase; Provisional; Region: PRK12824 458817008462 NAD(P) binding site [chemical binding]; other site 458817008463 active site 458817008464 UbiA prenyltransferase family; Region: UbiA; cl00337 458817008465 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817008466 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 458817008467 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 458817008468 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 458817008469 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 458817008470 AMP-binding enzyme; Region: AMP-binding; cl15778 458817008471 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 458817008472 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 458817008473 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 458817008474 DNA binding residues [nucleotide binding] 458817008475 putative dimer interface [polypeptide binding]; other site 458817008476 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 458817008477 isovaleryl-CoA dehydrogenase; Region: PLN02519 458817008478 substrate binding site [chemical binding]; other site 458817008479 FAD binding site [chemical binding]; other site 458817008480 catalytic base [active] 458817008481 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 458817008482 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 458817008483 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 458817008484 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 458817008485 gamma-carboxygeranoyl-CoA hydratase; Validated; Region: PRK05674 458817008486 substrate binding site [chemical binding]; other site 458817008487 oxyanion hole (OAH) forming residues; other site 458817008488 trimer interface [polypeptide binding]; other site 458817008489 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 458817008490 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 458817008491 ATP-grasp domain; Region: ATP-grasp_4; cl03087 458817008492 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 458817008493 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 458817008494 carboxyltransferase (CT) interaction site; other site 458817008495 biotinylation site [posttranslational modification]; other site 458817008496 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817008497 lipoyl-biotinyl attachment site [posttranslational modification]; other site 458817008498 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 458817008499 active site 458817008500 catalytic residues [active] 458817008501 metal binding site [ion binding]; metal-binding site 458817008502 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 458817008503 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 458817008504 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 458817008505 Protein export membrane protein; Region: SecD_SecF; cl14618 458817008506 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 458817008507 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817008508 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817008509 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 458817008510 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817008511 active site 458817008512 phosphorylation site [posttranslational modification] 458817008513 intermolecular recognition site; other site 458817008514 dimerization interface [polypeptide binding]; other site 458817008515 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 458817008516 DNA binding site [nucleotide binding] 458817008517 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 458817008518 dimer interface [polypeptide binding]; other site 458817008519 phosphorylation site [posttranslational modification] 458817008520 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 458817008521 ATP binding site [chemical binding]; other site 458817008522 Mg2+ binding site [ion binding]; other site 458817008523 G-X-G motif; other site 458817008524 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458817008525 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 458817008526 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 458817008527 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 458817008528 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 458817008529 SCP-2 sterol transfer family; Region: SCP2; cl01225 458817008530 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 458817008531 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 458817008532 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 458817008533 homotrimer interaction site [polypeptide binding]; other site 458817008534 putative active site [active] 458817008535 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 458817008536 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 458817008537 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 458817008538 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 458817008539 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 458817008540 molybdopterin cofactor binding site; other site 458817008541 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 458817008542 putative molybdopterin cofactor binding site; other site 458817008543 Protein of unknown function (DUF3374); Region: DUF3374; cl11904 458817008544 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 458817008545 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 458817008546 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 458817008547 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 458817008548 Phospholipid methyltransferase; Region: PEMT; cl00763 458817008549 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 458817008550 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 458817008551 LemA family; Region: LemA; cl00742 458817008552 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 458817008553 thymidine kinase; Provisional; Region: PRK04296 458817008554 dipeptidyl carboxypeptidase II; Provisional; Region: PRK10280 458817008555 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 458817008556 active site 458817008557 Zn binding site [ion binding]; other site 458817008558 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 458817008559 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 458817008560 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 458817008561 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 458817008562 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 458817008563 Ligand binding site [chemical binding]; other site 458817008564 Electron transfer flavoprotein domain; Region: ETF; pfam01012 458817008565 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 458817008566 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 458817008567 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 458817008568 active site 458817008569 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 458817008570 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 458817008571 active site 458817008572 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 458817008573 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 458817008574 Amidohydrolase; Region: Amidohydro_4; pfam13147 458817008575 active site 458817008576 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 458817008577 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 458817008578 homodimer interaction site [polypeptide binding]; other site 458817008579 cofactor binding site; other site 458817008580 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 458817008581 putative trimer interface [polypeptide binding]; other site 458817008582 putative acyl transferase; Provisional; Region: PRK10191 458817008583 putative CoA binding site [chemical binding]; other site 458817008584 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 458817008585 trimer interface [polypeptide binding]; other site 458817008586 active site 458817008587 substrate binding site [chemical binding]; other site 458817008588 CoA binding site [chemical binding]; other site 458817008589 glutamate:gamma-aminobutyrate antiporter; Region: 2A0307_GadC; TIGR00910 458817008590 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817008591 Helix-turn-helix domains; Region: HTH; cl00088 458817008592 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 458817008593 dimerization interface [polypeptide binding]; other site 458817008594 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; cl15377 458817008595 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 458817008596 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 458817008597 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 458817008598 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 458817008599 inhibitor-cofactor binding pocket; inhibition site 458817008600 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817008601 catalytic residue [active] 458817008602 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 458817008603 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 458817008604 dimer interface [polypeptide binding]; other site 458817008605 active site 458817008606 Predicted amidohydrolase [General function prediction only]; Region: COG0388 458817008607 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 458817008608 putative active site [active] 458817008609 catalytic triad [active] 458817008610 putative dimer interface [polypeptide binding]; other site 458817008611 prolyl-tRNA synthetase; Provisional; Region: PRK09194 458817008612 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 458817008613 dimer interface [polypeptide binding]; other site 458817008614 motif 1; other site 458817008615 active site 458817008616 motif 2; other site 458817008617 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 458817008618 putative deacylase active site [active] 458817008619 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 458817008620 active site 458817008621 motif 3; other site 458817008622 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 458817008623 anticodon binding site; other site 458817008624 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 458817008625 nucleophile elbow; other site 458817008626 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 458817008627 active site 458817008628 catalytic triad [active] 458817008629 oxyanion hole [active] 458817008630 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 458817008631 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 458817008632 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 458817008633 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817008634 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 458817008635 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817008636 metal binding site [ion binding]; metal-binding site 458817008637 active site 458817008638 I-site; other site 458817008639 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 458817008640 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 458817008641 Ligand Binding Site [chemical binding]; other site 458817008642 TilS substrate binding domain; Region: TilS; pfam09179 458817008643 B3/4 domain; Region: B3_4; cl11458 458817008644 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 458817008645 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 458817008646 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 458817008647 generic binding surface II; other site 458817008648 generic binding surface I; other site 458817008649 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 458817008650 RNA/DNA hybrid binding site [nucleotide binding]; other site 458817008651 active site 458817008652 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 458817008653 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 458817008654 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 458817008655 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 458817008656 active site 458817008657 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 458817008658 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 458817008659 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 458817008660 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 458817008661 trimer interface [polypeptide binding]; other site 458817008662 active site 458817008663 UDP-GlcNAc binding site [chemical binding]; other site 458817008664 lipid binding site [chemical binding]; lipid-binding site 458817008665 periplasmic chaperone; Provisional; Region: PRK10780 458817008666 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 458817008667 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 458817008668 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 458817008669 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 458817008670 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 458817008671 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 458817008672 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 458817008673 Surface antigen; Region: Bac_surface_Ag; cl03097 458817008674 zinc metallopeptidase RseP; Provisional; Region: PRK10779 458817008675 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 458817008676 active site 458817008677 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 458817008678 protein binding site [polypeptide binding]; other site 458817008679 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 458817008680 protein binding site [polypeptide binding]; other site 458817008681 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 458817008682 putative substrate binding region [chemical binding]; other site 458817008683 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 458817008684 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 458817008685 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 458817008686 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 458817008687 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 458817008688 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 458817008689 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 458817008690 catalytic residue [active] 458817008691 putative FPP diphosphate binding site; other site 458817008692 putative FPP binding hydrophobic cleft; other site 458817008693 dimer interface [polypeptide binding]; other site 458817008694 putative IPP diphosphate binding site; other site 458817008695 ribosome recycling factor; Reviewed; Region: frr; PRK00083 458817008696 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 458817008697 hinge region; other site 458817008698 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 458817008699 putative nucleotide binding site [chemical binding]; other site 458817008700 uridine monophosphate binding site [chemical binding]; other site 458817008701 homohexameric interface [polypeptide binding]; other site 458817008702 elongation factor Ts; Provisional; Region: tsf; PRK09377 458817008703 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 458817008704 Elongation factor TS; Region: EF_TS; pfam00889 458817008705 Elongation factor TS; Region: EF_TS; pfam00889 458817008706 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 458817008707 rRNA interaction site [nucleotide binding]; other site 458817008708 S8 interaction site; other site 458817008709 putative laminin-1 binding site; other site 458817008710 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 458817008711 active site 458817008712 PII uridylyl-transferase; Provisional; Region: PRK05007 458817008713 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 458817008714 metal binding triad; other site 458817008715 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 458817008716 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 458817008717 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 458817008718 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 458817008719 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 458817008720 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 458817008721 trimer interface [polypeptide binding]; other site 458817008722 active site 458817008723 substrate binding site [chemical binding]; other site 458817008724 CoA binding site [chemical binding]; other site 458817008725 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 458817008726 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 458817008727 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 458817008728 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 458817008729 putative active site [active] 458817008730 putative substrate binding site [chemical binding]; other site 458817008731 putative cosubstrate binding site; other site 458817008732 catalytic site [active] 458817008733 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 458817008734 tRNA pseudouridine isomerase C: Pseudouridine synthases catalyze the isomerization of specific uridines in an tRNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. TruC makes psi65 in tRNAs. This psi residue is not...; Region: PseudoU_synth_TruC; cd02563 458817008735 probable active site [active] 458817008736 tRNA pseudouridine synthase C; Region: DUF446; cl01187 458817008737 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 458817008738 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 458817008739 Protein of unknown function (DUF962); Region: DUF962; cl01879 458817008740 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 458817008741 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 458817008742 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 458817008743 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; cl02380 458817008744 Syd protein (SUKH-2); Region: Syd; cl06405 458817008745 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 458817008746 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 458817008747 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 458817008748 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 458817008749 Helix-turn-helix domains; Region: HTH; cl00088 458817008750 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 458817008751 putative substrate binding pocket [chemical binding]; other site 458817008752 putative dimerization interface [polypeptide binding]; other site 458817008753 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 458817008754 Helix-turn-helix domains; Region: HTH; cl00088 458817008755 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 458817008756 putative substrate binding pocket [chemical binding]; other site 458817008757 putative dimerization interface [polypeptide binding]; other site 458817008758 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 458817008759 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 458817008760 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 458817008761 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 458817008762 elongation factor G; Reviewed; Region: PRK13351 458817008763 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817008764 G1 box; other site 458817008765 GTP/Mg2+ binding site [chemical binding]; other site 458817008766 G2 box; other site 458817008767 Switch I region; other site 458817008768 G3 box; other site 458817008769 Switch II region; other site 458817008770 G4 box; other site 458817008771 G5 box; other site 458817008772 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 458817008773 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 458817008774 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 458817008775 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 458817008776 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 458817008777 active site 458817008778 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 458817008779 Acyl transferase domain; Region: Acyl_transf_1; cl08282 458817008780 Phosphopantetheine attachment site; Region: PP-binding; cl09936 458817008781 Phosphopantetheine attachment site; Region: PP-binding; cl09936 458817008782 Phosphopantetheine attachment site; Region: PP-binding; cl09936 458817008783 Phosphopantetheine attachment site; Region: PP-binding; cl09936 458817008784 Phosphopantetheine attachment site; Region: PP-binding; cl09936 458817008785 Phosphopantetheine attachment site; Region: PP-binding; cl09936 458817008786 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 458817008787 putative NADP binding site [chemical binding]; other site 458817008788 active site 458817008789 Acyl transferase domain; Region: Acyl_transf_1; cl08282 458817008790 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 458817008791 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 458817008792 active site 458817008793 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 458817008794 active site 458817008795 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 458817008796 dimer interface [polypeptide binding]; other site 458817008797 active site 2 [active] 458817008798 active site 1 [active] 458817008799 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 458817008800 active site 2 [active] 458817008801 active site 1 [active] 458817008802 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 458817008803 active site 1 [active] 458817008804 dimer interface [polypeptide binding]; other site 458817008805 active site 2 [active] 458817008806 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 458817008807 FMN binding site [chemical binding]; other site 458817008808 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 458817008809 substrate binding site [chemical binding]; other site 458817008810 putative catalytic residue [active] 458817008811 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cl00046 458817008812 CHASE4 domain; Region: CHASE4; cl01308 458817008813 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817008814 metal binding site [ion binding]; metal-binding site 458817008815 active site 458817008816 I-site; other site 458817008817 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 458817008818 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 458817008819 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 458817008820 active site 458817008821 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 458817008822 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 458817008823 ATP binding site [chemical binding]; other site 458817008824 Mg++ binding site [ion binding]; other site 458817008825 motif III; other site 458817008826 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 458817008827 nucleotide binding region [chemical binding]; other site 458817008828 ATP-binding site [chemical binding]; other site 458817008829 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 458817008830 amidohydrolase; Region: amidohydrolases; TIGR01891 458817008831 metal binding site [ion binding]; metal-binding site 458817008832 putative dimer interface [polypeptide binding]; other site 458817008833 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 458817008834 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 458817008835 N-terminal plug; other site 458817008836 ligand-binding site [chemical binding]; other site 458817008837 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 458817008838 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 458817008839 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 458817008840 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 458817008841 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 458817008842 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817008843 active site 458817008844 phosphorylation site [posttranslational modification] 458817008845 intermolecular recognition site; other site 458817008846 dimerization interface [polypeptide binding]; other site 458817008847 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 458817008848 DNA binding site [nucleotide binding] 458817008849 sensor protein PhoQ; Provisional; Region: PRK10815 458817008850 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 458817008851 ATP binding site [chemical binding]; other site 458817008852 Mg2+ binding site [ion binding]; other site 458817008853 G-X-G motif; other site 458817008854 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 458817008855 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 458817008856 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 458817008857 Catalytic domain of Protein Kinases; Region: PKc; cd00180 458817008858 active site 458817008859 ATP binding site [chemical binding]; other site 458817008860 substrate binding site [chemical binding]; other site 458817008861 activation loop (A-loop); other site 458817008862 Protein of unknown function, DUF599; Region: DUF599; cl01575 458817008863 Protein of unknown function (DUF2496); Region: DUF2496; cl11670 458817008864 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 458817008865 peptidase T; Region: peptidase-T; TIGR01882 458817008866 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 458817008867 metal binding site [ion binding]; metal-binding site 458817008868 dimer interface [polypeptide binding]; other site 458817008869 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817008870 NAD(P) binding site [chemical binding]; other site 458817008871 active site 458817008872 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817008873 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_27; cd04686 458817008874 nudix motif; other site 458817008875 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 458817008876 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 458817008877 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 458817008878 Indigoidine synthase A like protein; Region: Indigoidine_A; cl00983 458817008879 putative kinase; Provisional; Region: PRK09954 458817008880 Helix-turn-helix domains; Region: HTH; cl00088 458817008881 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 458817008882 substrate binding site [chemical binding]; other site 458817008883 ATP binding site [chemical binding]; other site 458817008884 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 458817008885 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 458817008886 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 458817008887 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 458817008888 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 458817008889 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 458817008890 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817008891 catalytic residue [active] 458817008892 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 458817008893 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 458817008894 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 458817008895 Conserved hypothetical protein (DUF2461); Region: DUF2461; cl02374 458817008896 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 458817008897 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; cl15754 458817008898 YfaZ precursor; Region: YfaZ; pfam07437 458817008899 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 458817008900 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 458817008901 catalytic residues [active] 458817008902 dimer interface [polypeptide binding]; other site 458817008903 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 458817008904 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 458817008905 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817008906 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 458817008907 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 458817008908 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 458817008909 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 458817008910 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 458817008911 Peptidase M1 family contains leukotriene A4 hydrolase; Region: M1_LTA4H; cd09599 458817008912 active site 458817008913 Zn binding site [ion binding]; other site 458817008914 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 458817008915 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 458817008916 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 458817008917 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 458817008918 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 458817008919 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 458817008920 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 458817008921 dimer interface [polypeptide binding]; other site 458817008922 phosphorylation site [posttranslational modification] 458817008923 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 458817008924 ATP binding site [chemical binding]; other site 458817008925 Mg2+ binding site [ion binding]; other site 458817008926 G-X-G motif; other site 458817008927 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 458817008928 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817008929 active site 458817008930 phosphorylation site [posttranslational modification] 458817008931 intermolecular recognition site; other site 458817008932 dimerization interface [polypeptide binding]; other site 458817008933 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 458817008934 DNA binding site [nucleotide binding] 458817008935 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 458817008936 trimer interface [polypeptide binding]; other site 458817008937 eyelet of channel; other site 458817008938 Putative exonuclease, RdgC; Region: RdgC; cl01122 458817008939 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 458817008940 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 458817008941 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 458817008942 protein binding site [polypeptide binding]; other site 458817008943 Tetratricopeptide repeat; Region: TPR_12; pfam13424 458817008944 Tetratricopeptide repeat; Region: TPR_12; pfam13424 458817008945 Tetratricopeptide repeat; Region: TPR_12; pfam13424 458817008946 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817008947 metal binding site [ion binding]; metal-binding site 458817008948 active site 458817008949 I-site; other site 458817008950 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 458817008951 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 458817008952 flap endonuclease-like protein; Provisional; Region: PRK09482 458817008953 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 458817008954 active site 458817008955 metal binding site 1 [ion binding]; metal-binding site 458817008956 putative 5' ssDNA interaction site; other site 458817008957 metal binding site 3; metal-binding site 458817008958 metal binding site 2 [ion binding]; metal-binding site 458817008959 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 458817008960 putative DNA binding site [nucleotide binding]; other site 458817008961 putative metal binding site [ion binding]; other site 458817008962 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 458817008963 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 458817008964 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 458817008965 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458817008966 tartrate dehydrogenase; Provisional; Region: PRK08194 458817008967 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 458817008968 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 458817008969 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; cl15754 458817008970 Protein of unknown function (DUF423); Region: DUF423; cl01008 458817008971 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 458817008972 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 458817008973 Helix-turn-helix domains; Region: HTH; cl00088 458817008974 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 458817008975 dimerization interface [polypeptide binding]; other site 458817008976 substrate binding pocket [chemical binding]; other site 458817008977 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 458817008978 THUMP domain; Region: THUMP; cl12076 458817008979 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 458817008980 Ligand Binding Site [chemical binding]; other site 458817008981 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 458817008982 active site residue [active] 458817008983 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 458817008984 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 458817008985 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 458817008986 ligand binding site [chemical binding]; other site 458817008987 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 458817008988 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 458817008989 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 458817008990 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 458817008991 substrate binding pocket [chemical binding]; other site 458817008992 chain length determination region; other site 458817008993 substrate-Mg2+ binding site; other site 458817008994 catalytic residues [active] 458817008995 aspartate-rich region 1; other site 458817008996 active site lid residues [active] 458817008997 aspartate-rich region 2; other site 458817008998 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 458817008999 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 458817009000 TPP-binding site; other site 458817009001 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 458817009002 PYR/PP interface [polypeptide binding]; other site 458817009003 dimer interface [polypeptide binding]; other site 458817009004 TPP binding site [chemical binding]; other site 458817009005 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 458817009006 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 458817009007 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 458817009008 dimer interface [polypeptide binding]; other site 458817009009 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 458817009010 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 458817009011 L-lactate permease; Region: Lactate_perm; cl00701 458817009012 glycolate transporter; Provisional; Region: PRK09695 458817009013 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 458817009014 FAD binding domain; Region: FAD_binding_4; pfam01565 458817009015 4Fe-4S binding domain; Region: Fer4; cl02805 458817009016 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 458817009017 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 458817009018 Cysteine-rich domain; Region: CCG; pfam02754 458817009019 Cysteine-rich domain; Region: CCG; pfam02754 458817009020 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 458817009021 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 458817009022 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 458817009023 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 458817009024 Gram-negative bacterial tonB protein; Region: TonB; cl10048 458817009025 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 458817009026 MatE; Region: MatE; cl10513 458817009027 MatE; Region: MatE; cl10513 458817009028 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817009029 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 458817009030 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 458817009031 DEAD-like helicases superfamily; Region: DEXDc; smart00487 458817009032 ATP binding site [chemical binding]; other site 458817009033 Mg++ binding site [ion binding]; other site 458817009034 motif III; other site 458817009035 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 458817009036 nucleotide binding region [chemical binding]; other site 458817009037 ATP-binding site [chemical binding]; other site 458817009038 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 458817009039 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 458817009040 PAS domain S-box; Region: sensory_box; TIGR00229 458817009041 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 458817009042 PAS fold; Region: PAS_3; pfam08447 458817009043 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 458817009044 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 458817009045 PAS domain; Region: PAS_9; pfam13426 458817009046 putative active site [active] 458817009047 heme pocket [chemical binding]; other site 458817009048 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817009049 metal binding site [ion binding]; metal-binding site 458817009050 active site 458817009051 I-site; other site 458817009052 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 458817009053 OsmC-like protein; Region: OsmC; cl00767 458817009054 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 458817009055 active site 458817009056 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817009057 metal binding site [ion binding]; metal-binding site 458817009058 active site 458817009059 I-site; other site 458817009060 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 458817009061 HDOD domain; Region: HDOD; pfam08668 458817009062 putative protease; Provisional; Region: PRK15452 458817009063 Peptidase family U32; Region: Peptidase_U32; cl03113 458817009064 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 458817009065 Protein of unknown function (DUF3299); Region: DUF3299; cl01387 458817009066 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 458817009067 active site 458817009068 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 458817009069 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 458817009070 Helix-turn-helix domain; Region: HTH_18; pfam12833 458817009071 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 458817009072 ferredoxin; Validated; Region: PRK07118 458817009073 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 458817009074 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 458817009075 active site 458817009076 SCP-2 sterol transfer family; Region: SCP2; cl01225 458817009077 Peptidase family U32; Region: Peptidase_U32; cl03113 458817009078 Peptidase family U32; Region: Peptidase_U32; cl03113 458817009079 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 458817009080 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 458817009081 substrate binding site [chemical binding]; other site 458817009082 catalytic Zn binding site [ion binding]; other site 458817009083 NAD binding site [chemical binding]; other site 458817009084 structural Zn binding site [ion binding]; other site 458817009085 dimer interface [polypeptide binding]; other site 458817009086 Predicted membrane protein [Function unknown]; Region: COG3371 458817009087 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 458817009088 Nucleoside recognition; Region: Gate; cl00486 458817009089 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 458817009090 DEAD-like helicases superfamily; Region: DEXDc; smart00487 458817009091 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 458817009092 ATP binding site [chemical binding]; other site 458817009093 Mg++ binding site [ion binding]; other site 458817009094 motif III; other site 458817009095 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 458817009096 nucleotide binding region [chemical binding]; other site 458817009097 ATP-binding site [chemical binding]; other site 458817009098 Surface antigen; Region: Bac_surface_Ag; cl03097 458817009099 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 458817009100 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 458817009101 PilZ domain; Region: PilZ; cl01260 458817009102 DNA repair protein RadA; Provisional; Region: PRK11823 458817009103 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817009104 Walker A motif; other site 458817009105 ATP binding site [chemical binding]; other site 458817009106 Walker B motif; other site 458817009107 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 458817009108 PilZ domain; Region: PilZ; cl01260 458817009109 PilZ domain; Region: PilZ; cl01260 458817009110 Predicted membrane protein (DUF2127); Region: DUF2127; cl01785 458817009111 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 458817009112 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 458817009113 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 458817009114 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 458817009115 Sulfatase; Region: Sulfatase; cl10460 458817009116 Polysulphide reductase, NrfD; Region: NrfD; cl01295 458817009117 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 458817009118 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 458817009119 thiosulfate reductase PhsA; Provisional; Region: PRK15488 458817009120 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 458817009121 putative [Fe4-S4] binding site [ion binding]; other site 458817009122 putative molybdopterin cofactor binding site [chemical binding]; other site 458817009123 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 458817009124 putative molybdopterin cofactor binding site; other site 458817009125 NMT1-like family; Region: NMT1_2; cl15260 458817009126 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 458817009127 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 458817009128 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 458817009129 dimer interface [polypeptide binding]; other site 458817009130 phosphorylation site [posttranslational modification] 458817009131 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 458817009132 ATP binding site [chemical binding]; other site 458817009133 Mg2+ binding site [ion binding]; other site 458817009134 G-X-G motif; other site 458817009135 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 458817009136 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817009137 active site 458817009138 phosphorylation site [posttranslational modification] 458817009139 intermolecular recognition site; other site 458817009140 dimerization interface [polypeptide binding]; other site 458817009141 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 458817009142 DNA binding residues [nucleotide binding] 458817009143 dimerization interface [polypeptide binding]; other site 458817009144 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 458817009145 phosphoserine phosphatase SerB; Region: serB; TIGR00338 458817009146 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 458817009147 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 458817009148 motif II; other site 458817009149 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 458817009150 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 458817009151 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 458817009152 Sulfatase; Region: Sulfatase; cl10460 458817009153 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 458817009154 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 458817009155 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 458817009156 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 458817009157 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 458817009158 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 458817009159 intersubunit interface [polypeptide binding]; other site 458817009160 active site 458817009161 catalytic residue [active] 458817009162 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 458817009163 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 458817009164 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 458817009165 Nucleoside recognition; Region: Gate; cl00486 458817009166 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 458817009167 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 458817009168 active site 458817009169 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 458817009170 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 458817009171 G1 box; other site 458817009172 putative GEF interaction site [polypeptide binding]; other site 458817009173 GTP/Mg2+ binding site [chemical binding]; other site 458817009174 Switch I region; other site 458817009175 G2 box; other site 458817009176 G3 box; other site 458817009177 Switch II region; other site 458817009178 G4 box; other site 458817009179 G5 box; other site 458817009180 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 458817009181 lipoprotein NlpI; Provisional; Region: PRK11189 458817009182 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 458817009183 binding surface 458817009184 TPR motif; other site 458817009185 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 458817009186 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 458817009187 RNase E interface [polypeptide binding]; other site 458817009188 trimer interface [polypeptide binding]; other site 458817009189 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 458817009190 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 458817009191 RNase E interface [polypeptide binding]; other site 458817009192 trimer interface [polypeptide binding]; other site 458817009193 active site 458817009194 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 458817009195 putative nucleic acid binding region [nucleotide binding]; other site 458817009196 G-X-X-G motif; other site 458817009197 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 458817009198 RNA binding site [nucleotide binding]; other site 458817009199 domain interface; other site 458817009200 putative diguanylate cyclase; Provisional; Region: PRK13561 458817009201 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 458817009202 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817009203 metal binding site [ion binding]; metal-binding site 458817009204 active site 458817009205 I-site; other site 458817009206 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 458817009207 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 458817009208 16S/18S rRNA binding site [nucleotide binding]; other site 458817009209 S13e-L30e interaction site [polypeptide binding]; other site 458817009210 25S rRNA binding site [nucleotide binding]; other site 458817009211 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 458817009212 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 458817009213 RNA binding site [nucleotide binding]; other site 458817009214 active site 458817009215 Ribosome-binding factor A; Region: RBFA; cl00542 458817009216 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 458817009217 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 458817009218 translation initiation factor IF-2; Region: IF-2; TIGR00487 458817009219 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 458817009220 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 458817009221 G1 box; other site 458817009222 putative GEF interaction site [polypeptide binding]; other site 458817009223 GTP/Mg2+ binding site [chemical binding]; other site 458817009224 Switch I region; other site 458817009225 G2 box; other site 458817009226 G3 box; other site 458817009227 Switch II region; other site 458817009228 G4 box; other site 458817009229 G5 box; other site 458817009230 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 458817009231 Translation-initiation factor 2; Region: IF-2; pfam11987 458817009232 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 458817009233 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 458817009234 NusA N-terminal domain; Region: NusA_N; pfam08529 458817009235 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 458817009236 RNA binding site [nucleotide binding]; other site 458817009237 homodimer interface [polypeptide binding]; other site 458817009238 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 458817009239 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 458817009240 G-X-X-G motif; other site 458817009241 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 458817009242 ribosome maturation protein RimP; Reviewed; Region: PRK00092 458817009243 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 458817009244 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 458817009245 Sm1 motif; other site 458817009246 D3 - B interaction site; other site 458817009247 D1 - D2 interaction site; other site 458817009248 Hfq - Hfq interaction site; other site 458817009249 RNA binding pocket [nucleotide binding]; other site 458817009250 Sm2 motif; other site 458817009251 Preprotein translocase SecG subunit; Region: SecG; cl09123 458817009252 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 458817009253 substrate binding site [chemical binding]; other site 458817009254 dimer interface [polypeptide binding]; other site 458817009255 catalytic triad [active] 458817009256 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 458817009257 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 458817009258 active site 458817009259 substrate binding site [chemical binding]; other site 458817009260 metal binding site [ion binding]; metal-binding site 458817009261 dihydropteroate synthase; Region: DHPS; TIGR01496 458817009262 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 458817009263 substrate binding pocket [chemical binding]; other site 458817009264 dimer interface [polypeptide binding]; other site 458817009265 inhibitor binding site; inhibition site 458817009266 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 458817009267 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 458817009268 Walker A motif; other site 458817009269 ATP binding site [chemical binding]; other site 458817009270 Walker B motif; other site 458817009271 arginine finger; other site 458817009272 Peptidase family M41; Region: Peptidase_M41; pfam01434 458817009273 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 458817009274 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 458817009275 S-adenosylmethionine binding site [chemical binding]; other site 458817009276 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 458817009277 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13021 458817009278 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 458817009279 Protein export membrane protein; Region: SecD_SecF; cl14618 458817009280 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK12933 458817009281 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 458817009282 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 458817009283 Protein export membrane protein; Region: SecD_SecF; cl14618 458817009284 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 458817009285 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 458817009286 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 458817009287 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 458817009288 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 458817009289 ATP-grasp domain; Region: ATP-grasp_4; cl03087 458817009290 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 458817009291 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 458817009292 ATP-grasp domain; Region: ATP-grasp_4; cl03087 458817009293 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 458817009294 IMP binding site; other site 458817009295 dimer interface [polypeptide binding]; other site 458817009296 interdomain contacts; other site 458817009297 partial ornithine binding site; other site 458817009298 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 458817009299 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 458817009300 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 458817009301 catalytic site [active] 458817009302 subunit interface [polypeptide binding]; other site 458817009303 dihydrodipicolinate reductase; Provisional; Region: PRK00048 458817009304 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817009305 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 458817009306 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 458817009307 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 458817009308 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 458817009309 Peptidase family M48; Region: Peptidase_M48; cl12018 458817009310 chaperone protein DnaJ; Provisional; Region: PRK10767 458817009311 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 458817009312 HSP70 interaction site [polypeptide binding]; other site 458817009313 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 458817009314 substrate binding site [polypeptide binding]; other site 458817009315 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 458817009316 Zn binding sites [ion binding]; other site 458817009317 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 458817009318 dimer interface [polypeptide binding]; other site 458817009319 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 458817009320 EamA-like transporter family; Region: EamA; cl01037 458817009321 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 458817009322 EamA-like transporter family; Region: EamA; cl01037 458817009323 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 458817009324 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 458817009325 putative catalytic cysteine [active] 458817009326 gamma-glutamyl kinase; Provisional; Region: PRK05429 458817009327 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 458817009328 nucleotide binding site [chemical binding]; other site 458817009329 homotetrameric interface [polypeptide binding]; other site 458817009330 putative phosphate binding site [ion binding]; other site 458817009331 putative allosteric binding site; other site 458817009332 PUA domain; Region: PUA; cl00607 458817009333 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 458817009334 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 458817009335 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 458817009336 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 458817009337 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 458817009338 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 458817009339 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 458817009340 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 458817009341 metal binding site [ion binding]; metal-binding site 458817009342 dimer interface [polypeptide binding]; other site 458817009343 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 458817009344 active site 458817009345 DNA polymerase IV; Validated; Region: PRK02406 458817009346 DNA binding site [nucleotide binding] 458817009347 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 458817009348 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 458817009349 heme binding site [chemical binding]; other site 458817009350 ferroxidase pore; other site 458817009351 ferroxidase diiron center [ion binding]; other site 458817009352 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 458817009353 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 458817009354 heme binding site [chemical binding]; other site 458817009355 ferroxidase pore; other site 458817009356 ferroxidase diiron center [ion binding]; other site 458817009357 Protein of unknown function (DUF539); Region: DUF539; cl01129 458817009358 ApbE family; Region: ApbE; cl00643 458817009359 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 458817009360 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 458817009361 catalytic loop [active] 458817009362 iron binding site [ion binding]; other site 458817009363 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 458817009364 FAD binding pocket [chemical binding]; other site 458817009365 FAD binding motif [chemical binding]; other site 458817009366 phosphate binding motif [ion binding]; other site 458817009367 beta-alpha-beta structure motif; other site 458817009368 NAD binding pocket [chemical binding]; other site 458817009369 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 458817009370 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 458817009371 FMN-binding domain; Region: FMN_bind; cl01081 458817009372 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 458817009373 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 458817009374 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 458817009375 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 458817009376 E3 interaction surface; other site 458817009377 lipoyl attachment site [posttranslational modification]; other site 458817009378 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 458817009379 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 458817009380 BolA-like protein; Region: BolA; cl00386 458817009381 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 458817009382 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 458817009383 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 458817009384 S-adenosylmethionine binding site [chemical binding]; other site 458817009385 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 458817009386 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 458817009387 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG3056 458817009388 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 458817009389 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 458817009390 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 458817009391 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 458817009392 substrate binding site [chemical binding]; other site 458817009393 AmpG-related permease; Region: 2A0125; TIGR00901 458817009394 muropeptide transporter; Validated; Region: ampG; PRK11010 458817009395 Protein of unknown function (DUF520); Region: DUF520; cl00723 458817009396 VanZ like family; Region: VanZ; cl01971 458817009397 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 458817009398 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817009399 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 458817009400 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 458817009401 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 458817009402 active site 458817009403 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 458817009404 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 458817009405 NeuB family; Region: NeuB; cl00496 458817009406 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 458817009407 Protein of unknown function (DUF819); Region: DUF819; cl02317 458817009408 Uncharacterized conserved protein [Function unknown]; Region: COG2912 458817009409 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 458817009410 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 458817009411 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 458817009412 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 458817009413 S-adenosylmethionine binding site [chemical binding]; other site 458817009414 peptide chain release factor 1; Validated; Region: prfA; PRK00591 458817009415 RF-1 domain; Region: RF-1; cl02875 458817009416 RF-1 domain; Region: RF-1; cl02875 458817009417 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 458817009418 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 458817009419 tRNA; other site 458817009420 putative tRNA binding site [nucleotide binding]; other site 458817009421 putative NADP binding site [chemical binding]; other site 458817009422 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 458817009423 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 458817009424 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 458817009425 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 458817009426 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 458817009427 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 458817009428 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 458817009429 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 458817009430 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 458817009431 active site 458817009432 GTP-binding protein YchF; Reviewed; Region: PRK09601 458817009433 YchF GTPase; Region: YchF; cd01900 458817009434 G1 box; other site 458817009435 GTP/Mg2+ binding site [chemical binding]; other site 458817009436 Switch I region; other site 458817009437 G2 box; other site 458817009438 Switch II region; other site 458817009439 G3 box; other site 458817009440 G4 box; other site 458817009441 G5 box; other site 458817009442 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 458817009443 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 458817009444 putative active site [active] 458817009445 catalytic residue [active] 458817009446 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK08849 458817009447 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817009448 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 458817009449 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 458817009450 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 458817009451 FeS/SAM binding site; other site 458817009452 TRAM domain; Region: TRAM; cl01282 458817009453 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 458817009454 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817009455 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 458817009456 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 458817009457 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 458817009458 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 458817009459 Transporter associated domain; Region: CorC_HlyC; cl08393 458817009460 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 458817009461 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 458817009462 putative active site [active] 458817009463 catalytic triad [active] 458817009464 putative dimer interface [polypeptide binding]; other site 458817009465 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 458817009466 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 458817009467 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 458817009468 HIGH motif; other site 458817009469 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 458817009470 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 458817009471 active site 458817009472 KMSKS motif; other site 458817009473 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 458817009474 tRNA binding surface [nucleotide binding]; other site 458817009475 Lipopolysaccharide-assembly; Region: LptE; cl01125 458817009476 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 458817009477 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 458817009478 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 458817009479 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 458817009480 active site 458817009481 (T/H)XGH motif; other site 458817009482 Oligomerisation domain; Region: Oligomerisation; cl00519 458817009483 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 458817009484 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 458817009485 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 458817009486 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 458817009487 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 458817009488 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 458817009489 Transglycosylase SLT domain; Region: SLT_2; pfam13406 458817009490 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 458817009491 N-acetyl-D-glucosamine binding site [chemical binding]; other site 458817009492 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 458817009493 Sporulation related domain; Region: SPOR; cl10051 458817009494 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 458817009495 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 458817009496 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 458817009497 Protein of unknown function (DUF493); Region: DUF493; cl01102 458817009498 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 458817009499 lipoyl synthase; Provisional; Region: PRK05481 458817009500 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 458817009501 FeS/SAM binding site; other site 458817009502 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 458817009503 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458817009504 Coenzyme A binding pocket [chemical binding]; other site 458817009505 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 458817009506 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 458817009507 Clp amino terminal domain; Region: Clp_N; pfam02861 458817009508 Clp amino terminal domain; Region: Clp_N; pfam02861 458817009509 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 458817009510 Walker A motif; other site 458817009511 ATP binding site [chemical binding]; other site 458817009512 Walker B motif; other site 458817009513 arginine finger; other site 458817009514 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 458817009515 Walker A motif; other site 458817009516 ATP binding site [chemical binding]; other site 458817009517 Walker B motif; other site 458817009518 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 458817009519 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 458817009520 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 458817009521 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 458817009522 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 458817009523 RNA binding surface [nucleotide binding]; other site 458817009524 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 458817009525 active site 458817009526 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 458817009527 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 458817009528 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 458817009529 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 458817009530 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 458817009531 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817009532 dimer interface [polypeptide binding]; other site 458817009533 putative CheW interface [polypeptide binding]; other site 458817009534 ornithine cyclodeaminase; Validated; Region: PRK06141 458817009535 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817009536 RNA polymerase sigma factor SigY; Reviewed; Region: PRK09638 458817009537 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 458817009538 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 458817009539 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 458817009540 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 458817009541 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 458817009542 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 458817009543 RNA binding surface [nucleotide binding]; other site 458817009544 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 458817009545 active site 458817009546 uracil binding [chemical binding]; other site 458817009547 maltose O-acetyltransferase; Provisional; Region: PRK10092 458817009548 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 458817009549 active site 458817009550 substrate binding site [chemical binding]; other site 458817009551 trimer interface [polypeptide binding]; other site 458817009552 CoA binding site [chemical binding]; other site 458817009553 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 458817009554 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 458817009555 active site 458817009556 Zn binding site [ion binding]; other site 458817009557 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 458817009558 synthetase active site [active] 458817009559 NTP binding site [chemical binding]; other site 458817009560 metal binding site [ion binding]; metal-binding site 458817009561 Domain of unknown function (DUF1870); Region: DUF1870; pfam08965 458817009562 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 458817009563 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 458817009564 putative C-terminal domain interface [polypeptide binding]; other site 458817009565 putative GSH binding site (G-site) [chemical binding]; other site 458817009566 putative dimer interface [polypeptide binding]; other site 458817009567 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 458817009568 dimer interface [polypeptide binding]; other site 458817009569 substrate binding pocket (H-site) [chemical binding]; other site 458817009570 N-terminal domain interface [polypeptide binding]; other site 458817009571 Bacterial PH domain; Region: DUF304; cl01348 458817009572 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 458817009573 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 458817009574 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 458817009575 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 458817009576 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 458817009577 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 458817009578 malate dehydrogenase; Provisional; Region: PRK13529 458817009579 Malic enzyme, N-terminal domain; Region: malic; pfam00390 458817009580 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 458817009581 NAD(P) binding site [chemical binding]; other site 458817009582 Protein of unknown function DUF262; Region: DUF262; cl14890 458817009583 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 458817009584 thiosulfate reductase PhsA; Provisional; Region: PRK15488 458817009585 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 458817009586 putative [Fe4-S4] binding site [ion binding]; other site 458817009587 putative molybdopterin cofactor binding site [chemical binding]; other site 458817009588 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 458817009589 putative molybdopterin cofactor binding site; other site 458817009590 Protein of unknown function (DUF3069); Region: DUF3069; pfam11269 458817009591 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 458817009592 active site 458817009593 Tetratricopeptide repeat; Region: TPR_12; pfam13424 458817009594 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817009595 metal binding site [ion binding]; metal-binding site 458817009596 active site 458817009597 I-site; other site 458817009598 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 458817009599 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 458817009600 Dodecin; Region: Dodecin; cl01328 458817009601 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 458817009602 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817009603 Helix-turn-helix domains; Region: HTH; cl00088 458817009604 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 458817009605 putative effector binding pocket; other site 458817009606 dimerization interface [polypeptide binding]; other site 458817009607 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 458817009608 catalytic residues [active] 458817009609 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 458817009610 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 458817009611 catalytic residues [active] 458817009612 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 458817009613 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 458817009614 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 458817009615 DsbD alpha interface [polypeptide binding]; other site 458817009616 catalytic residues [active] 458817009617 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817009618 Helix-turn-helix domains; Region: HTH; cl00088 458817009619 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 458817009620 putative dimerization interface [polypeptide binding]; other site 458817009621 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 458817009622 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 458817009623 active site 458817009624 catalytic triad [active] 458817009625 oxyanion hole [active] 458817009626 TonB-dependent vitamin B12 receptor; Region: TonB-B12; TIGR01779 458817009627 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 458817009628 N-terminal plug; other site 458817009629 ligand-binding site [chemical binding]; other site 458817009630 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 458817009631 Helix-turn-helix domains; Region: HTH; cl00088 458817009632 LysR family transcriptional regulator; Provisional; Region: PRK14997 458817009633 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 458817009634 putative effector binding pocket; other site 458817009635 dimerization interface [polypeptide binding]; other site 458817009636 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 458817009637 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 458817009638 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 458817009639 substrate binding pocket [chemical binding]; other site 458817009640 membrane-bound complex binding site; other site 458817009641 hinge residues; other site 458817009642 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 458817009643 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 458817009644 RNA binding surface [nucleotide binding]; other site 458817009645 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 458817009646 active site 458817009647 uracil binding [chemical binding]; other site 458817009648 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 458817009649 active site 458817009650 substrate binding pocket [chemical binding]; other site 458817009651 dimer interface [polypeptide binding]; other site 458817009652 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 458817009653 PPIC-type PPIASE domain; Region: Rotamase; cl08278 458817009654 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 458817009655 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 458817009656 N-formylglutamate amidohydrolase; Region: FGase; cl01522 458817009657 conserved hypothetical protein; Region: QEGLA; TIGR02421 458817009658 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 458817009659 glutathione synthetase; Provisional; Region: PRK12458 458817009660 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 458817009661 ATP-grasp domain; Region: ATP-grasp_4; cl03087 458817009662 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817009663 metal binding site [ion binding]; metal-binding site 458817009664 active site 458817009665 I-site; other site 458817009666 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 458817009667 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 458817009668 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 458817009669 active site 458817009670 FMN binding site [chemical binding]; other site 458817009671 substrate binding site [chemical binding]; other site 458817009672 3Fe-4S cluster binding site [ion binding]; other site 458817009673 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 458817009674 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 458817009675 PII uridylyl-transferase; Provisional; Region: PRK05007 458817009676 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 458817009677 metal binding triad; other site 458817009678 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 458817009679 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 458817009680 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 458817009681 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 458817009682 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 458817009683 Beta-Casp domain; Region: Beta-Casp; cl12567 458817009684 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 458817009685 Protein of unknown function (DUF465); Region: DUF465; cl01070 458817009686 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 458817009687 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 458817009688 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 458817009689 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 458817009690 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 458817009691 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 458817009692 active site 458817009693 Zn binding site [ion binding]; other site 458817009694 putative S-transferase; Provisional; Region: PRK11752 458817009695 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 458817009696 C-terminal domain interface [polypeptide binding]; other site 458817009697 GSH binding site (G-site) [chemical binding]; other site 458817009698 dimer interface [polypeptide binding]; other site 458817009699 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 458817009700 dimer interface [polypeptide binding]; other site 458817009701 N-terminal domain interface [polypeptide binding]; other site 458817009702 active site 458817009703 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 458817009704 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 458817009705 guanine deaminase; Region: guan_deamin; TIGR02967 458817009706 active site 458817009707 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 458817009708 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 458817009709 SpoOM protein; Region: Spo0M; pfam07070 458817009710 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 458817009711 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 458817009712 active site pocket [active] 458817009713 BCCT family transporter; Region: BCCT; cl00569 458817009714 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 458817009715 Transcriptional regulators [Transcription]; Region: FadR; COG2186 458817009716 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458817009717 DNA-binding site [nucleotide binding]; DNA binding site 458817009718 FCD domain; Region: FCD; cl11656 458817009719 Sodium/glutamate symporter; Region: Glt_symporter; pfam03616 458817009720 EamA-like transporter family; Region: EamA; cl01037 458817009721 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 458817009722 EamA-like transporter family; Region: EamA; cl01037 458817009723 TIGR03549 family protein; Region: TIGR03549 458817009724 OsmC-like protein; Region: OsmC; cl00767 458817009725 Uncharacterized conserved protein [Function unknown]; Region: COG1944; cl09146 458817009726 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 458817009727 uncharacterized ygcE-like proteins, N-terminal domain; Region: FGGY_ygcE_like; cd07779 458817009728 putative N- and C-terminal domain interface [polypeptide binding]; other site 458817009729 putative active site [active] 458817009730 putative MgATP binding site [chemical binding]; other site 458817009731 catalytic site [active] 458817009732 metal binding site [ion binding]; metal-binding site 458817009733 putative carbohydrate binding site [chemical binding]; other site 458817009734 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 458817009735 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 458817009736 FAD binding domain; Region: FAD_binding_4; pfam01565 458817009737 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 458817009738 Transcription factor e(y)2; Region: EnY2; pfam10163 458817009739 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 458817009740 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 458817009741 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 458817009742 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 458817009743 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 458817009744 Ribosome recycling factor; Region: RRF_GI; pfam12614 458817009745 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 458817009746 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 458817009747 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 458817009748 DNA-binding site [nucleotide binding]; DNA binding site 458817009749 RNA-binding motif; other site 458817009750 Protein of unknown function (DUF3083); Region: DUF3083; pfam11281 458817009751 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 458817009752 homodimer interaction site [polypeptide binding]; other site 458817009753 cofactor binding site; other site 458817009754 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817009755 metal binding site [ion binding]; metal-binding site 458817009756 active site 458817009757 I-site; other site 458817009758 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 458817009759 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 458817009760 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 458817009761 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817009762 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817009763 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 458817009764 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 458817009765 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 458817009766 peptidase T-like protein; Region: PepT-like; TIGR01883 458817009767 metal binding site [ion binding]; metal-binding site 458817009768 putative dimer interface [polypeptide binding]; other site 458817009769 Protein of unknown function (DUF330); Region: DUF330; cl01135 458817009770 paraquat-inducible protein B; Provisional; Region: PRK10807 458817009771 mce related protein; Region: MCE; pfam02470 458817009772 mce related protein; Region: MCE; pfam02470 458817009773 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 458817009774 Paraquat-inducible protein A; Region: PqiA; pfam04403 458817009775 Paraquat-inducible protein A; Region: PqiA; pfam04403 458817009776 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 458817009777 catalytic motif [active] 458817009778 Zn binding site [ion binding]; other site 458817009779 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 458817009780 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 458817009781 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 458817009782 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 458817009783 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 458817009784 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 458817009785 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 458817009786 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 458817009787 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 458817009788 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 458817009789 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 458817009790 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 458817009791 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 458817009792 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 458817009793 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 458817009794 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 458817009795 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 458817009796 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817009797 dimer interface [polypeptide binding]; other site 458817009798 putative CheW interface [polypeptide binding]; other site 458817009799 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 458817009800 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 458817009801 active site 458817009802 metal binding site [ion binding]; metal-binding site 458817009803 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 458817009804 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 458817009805 glycine dehydrogenase; Provisional; Region: PRK05367 458817009806 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 458817009807 tetramer interface [polypeptide binding]; other site 458817009808 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817009809 catalytic residue [active] 458817009810 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 458817009811 tetramer interface [polypeptide binding]; other site 458817009812 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817009813 catalytic residue [active] 458817009814 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 458817009815 lipoyl attachment site [posttranslational modification]; other site 458817009816 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 458817009817 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 458817009818 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817009819 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 458817009820 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817009821 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 458817009822 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 458817009823 Cell division protein ZapA; Region: ZapA; cl01146 458817009824 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 458817009825 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 458817009826 active site 458817009827 catalytic site [active] 458817009828 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 458817009829 active site 458817009830 DnaJ central domain; Region: DnaJ_CXXCXGXG; pfam00684 458817009831 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 458817009832 Zn binding sites [ion binding]; other site 458817009833 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 458817009834 ligand binding site [chemical binding]; other site 458817009835 flexible hinge region; other site 458817009836 Helix-turn-helix domains; Region: HTH; cl00088 458817009837 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 458817009838 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 458817009839 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 458817009840 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 458817009841 ligand binding site [chemical binding]; other site 458817009842 active site 458817009843 UGI interface [polypeptide binding]; other site 458817009844 catalytic site [active] 458817009845 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 458817009846 LysE type translocator; Region: LysE; cl00565 458817009847 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 458817009848 DsbD alpha interface [polypeptide binding]; other site 458817009849 catalytic residues [active] 458817009850 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 458817009851 AMP-binding enzyme; Region: AMP-binding; cl15778 458817009852 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 458817009853 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 458817009854 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 458817009855 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817009856 Walker A/P-loop; other site 458817009857 ATP binding site [chemical binding]; other site 458817009858 Q-loop/lid; other site 458817009859 ABC transporter signature motif; other site 458817009860 Walker B; other site 458817009861 D-loop; other site 458817009862 H-loop/switch region; other site 458817009863 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 458817009864 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 458817009865 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 458817009866 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 458817009867 N-terminal plug; other site 458817009868 ligand-binding site [chemical binding]; other site 458817009869 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 458817009870 Gram-negative bacterial tonB protein; Region: TonB; cl10048 458817009871 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 458817009872 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 458817009873 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 458817009874 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 458817009875 putative hemin binding site; other site 458817009876 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 458817009877 ABC-ATPase subunit interface; other site 458817009878 dimer interface [polypeptide binding]; other site 458817009879 putative PBP binding regions; other site 458817009880 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 458817009881 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 458817009882 Walker A/P-loop; other site 458817009883 ATP binding site [chemical binding]; other site 458817009884 Q-loop/lid; other site 458817009885 ABC transporter signature motif; other site 458817009886 Walker B; other site 458817009887 D-loop; other site 458817009888 H-loop/switch region; other site 458817009889 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 458817009890 Helix-turn-helix domains; Region: HTH; cl00088 458817009891 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 458817009892 folate binding site [chemical binding]; other site 458817009893 NADP+ binding site [chemical binding]; other site 458817009894 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 458817009895 putative active site [active] 458817009896 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817009897 Helix-turn-helix domains; Region: HTH; cl00088 458817009898 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 458817009899 dimerization interface [polypeptide binding]; other site 458817009900 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 458817009901 Predicted membrane protein [Function unknown]; Region: COG4125 458817009902 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 458817009903 coproporphyrinogen III oxidase; Provisional; Region: PRK09058 458817009904 Protein of unknown function (DUF2956); Region: DUF2956; pfam11169 458817009905 Periplasmic nitrate reductase protein NapE; Region: NapE; cl01848 458817009906 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 458817009907 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 458817009908 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 458817009909 molybdopterin cofactor binding site [chemical binding]; other site 458817009910 substrate binding site [chemical binding]; other site 458817009911 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 458817009912 molybdopterin cofactor binding site; other site 458817009913 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 458817009914 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 458817009915 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 458817009916 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 458817009917 ATP binding site [chemical binding]; other site 458817009918 Mg2+ binding site [ion binding]; other site 458817009919 G-X-G motif; other site 458817009920 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817009921 active site 458817009922 phosphorylation site [posttranslational modification] 458817009923 intermolecular recognition site; other site 458817009924 dimerization interface [polypeptide binding]; other site 458817009925 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 458817009926 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 458817009927 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 458817009928 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 458817009929 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817009930 active site 458817009931 phosphorylation site [posttranslational modification] 458817009932 intermolecular recognition site; other site 458817009933 dimerization interface [polypeptide binding]; other site 458817009934 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 458817009935 DNA binding site [nucleotide binding] 458817009936 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 458817009937 Ion transport protein; Region: Ion_trans; pfam00520 458817009938 Polycystin cation channel; Region: PKD_channel; pfam08016 458817009939 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; cl11547 458817009940 Bacterial PH domain; Region: DUF304; cl01348 458817009941 Predicted membrane protein [Function unknown]; Region: COG3428 458817009942 Bacterial PH domain; Region: DUF304; cl01348 458817009943 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 458817009944 Bacterial PH domain; Region: DUF304; cl01348 458817009945 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 458817009946 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 458817009947 Ligand Binding Site [chemical binding]; other site 458817009948 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 458817009949 Ligand Binding Site [chemical binding]; other site 458817009950 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 458817009951 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 458817009952 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 458817009953 NAD(P) binding site [chemical binding]; other site 458817009954 catalytic residues [active] 458817009955 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 458817009956 Helix-turn-helix domains; Region: HTH; cl00088 458817009957 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 458817009958 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 458817009959 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 458817009960 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 458817009961 ATP binding site [chemical binding]; other site 458817009962 Mg2+ binding site [ion binding]; other site 458817009963 G-X-G motif; other site 458817009964 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 458817009965 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817009966 active site 458817009967 phosphorylation site [posttranslational modification] 458817009968 intermolecular recognition site; other site 458817009969 dimerization interface [polypeptide binding]; other site 458817009970 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 458817009971 Walker A motif; other site 458817009972 ATP binding site [chemical binding]; other site 458817009973 Walker B motif; other site 458817009974 arginine finger; other site 458817009975 Helix-turn-helix domains; Region: HTH; cl00088 458817009976 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 458817009977 FtsX-like permease family; Region: FtsX; cl15850 458817009978 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 458817009979 FtsX-like permease family; Region: FtsX; cl15850 458817009980 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 458817009981 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 458817009982 Walker A/P-loop; other site 458817009983 ATP binding site [chemical binding]; other site 458817009984 Q-loop/lid; other site 458817009985 ABC transporter signature motif; other site 458817009986 Walker B; other site 458817009987 D-loop; other site 458817009988 H-loop/switch region; other site 458817009989 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817009990 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 458817009991 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817009992 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 458817009993 eyelet of channel; other site 458817009994 trimer interface [polypeptide binding]; other site 458817009995 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 458817009996 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 458817009997 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 458817009998 [4Fe-4S] binding site [ion binding]; other site 458817009999 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 458817010000 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 458817010001 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 458817010002 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 458817010003 molybdopterin cofactor binding site; other site 458817010004 nitrate reductase, beta subunit; Region: narH; TIGR01660 458817010005 4Fe-4S binding domain; Region: Fer4; cl02805 458817010006 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 458817010007 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 458817010008 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 458817010009 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 458817010010 Walker A motif; other site 458817010011 ATP binding site [chemical binding]; other site 458817010012 Walker B motif; other site 458817010013 arginine finger; other site 458817010014 Helix-turn-helix domains; Region: HTH; cl00088 458817010015 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 458817010016 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817010017 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 458817010018 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 458817010019 active sites [active] 458817010020 tetramer interface [polypeptide binding]; other site 458817010021 MAPEG family; Region: MAPEG; cl09190 458817010022 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 458817010023 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 458817010024 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 458817010025 cobalamin binding residues [chemical binding]; other site 458817010026 putative BtuC binding residues; other site 458817010027 dimer interface [polypeptide binding]; other site 458817010028 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 458817010029 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 458817010030 homodimer interface [polypeptide binding]; other site 458817010031 Walker A motif; other site 458817010032 ATP binding site [chemical binding]; other site 458817010033 hydroxycobalamin binding site [chemical binding]; other site 458817010034 Walker B motif; other site 458817010035 cobyric acid synthase; Provisional; Region: PRK00784 458817010036 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817010037 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817010038 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 458817010039 catalytic triad [active] 458817010040 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 458817010041 homotrimer interface [polypeptide binding]; other site 458817010042 Walker A motif; other site 458817010043 GTP binding site [chemical binding]; other site 458817010044 Walker B motif; other site 458817010045 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 458817010046 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 458817010047 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 458817010048 putative dimer interface [polypeptide binding]; other site 458817010049 active site pocket [active] 458817010050 putative cataytic base [active] 458817010051 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 458817010052 ABC-ATPase subunit interface; other site 458817010053 dimer interface [polypeptide binding]; other site 458817010054 putative PBP binding regions; other site 458817010055 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 458817010056 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 458817010057 Walker A/P-loop; other site 458817010058 ATP binding site [chemical binding]; other site 458817010059 Q-loop/lid; other site 458817010060 ABC transporter signature motif; other site 458817010061 Walker B; other site 458817010062 D-loop; other site 458817010063 H-loop/switch region; other site 458817010064 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 458817010065 catalytic core [active] 458817010066 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 458817010067 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 458817010068 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 458817010069 substrate binding pocket [chemical binding]; other site 458817010070 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 458817010071 B12 binding site [chemical binding]; other site 458817010072 cobalt ligand [ion binding]; other site 458817010073 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 458817010074 UreD urease accessory protein; Region: UreD; cl00530 458817010075 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 458817010076 alpha-gamma subunit interface [polypeptide binding]; other site 458817010077 beta-gamma subunit interface [polypeptide binding]; other site 458817010078 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 458817010079 gamma-beta subunit interface [polypeptide binding]; other site 458817010080 alpha-beta subunit interface [polypeptide binding]; other site 458817010081 urease subunit alpha; Reviewed; Region: ureC; PRK13207 458817010082 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 458817010083 subunit interactions [polypeptide binding]; other site 458817010084 active site 458817010085 flap region; other site 458817010086 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 458817010087 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 458817010088 dimer interface [polypeptide binding]; other site 458817010089 catalytic residues [active] 458817010090 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 458817010091 UreF; Region: UreF; pfam01730 458817010092 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817010093 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 458817010094 homotrimer interaction site [polypeptide binding]; other site 458817010095 putative active site [active] 458817010096 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 458817010097 homotrimer interaction site [polypeptide binding]; other site 458817010098 putative active site [active] 458817010099 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 458817010100 homotrimer interaction site [polypeptide binding]; other site 458817010101 putative active site [active] 458817010102 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 458817010103 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 458817010104 hypothetical protein; Provisional; Region: PRK11281 458817010105 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 458817010106 Mechanosensitive ion channel; Region: MS_channel; pfam00924 458817010107 Protein of unknown function (DUF465); Region: DUF465; cl01070 458817010108 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 458817010109 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 458817010110 active site 458817010111 purine riboside binding site [chemical binding]; other site 458817010112 TM2 domain; Region: TM2; cl00984 458817010113 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 458817010114 Peptidase M66; Region: Peptidase_M66; pfam10462 458817010115 ToxR activated gene A lipoprotein; Region: TagA; pfam12561 458817010116 ToxR activated gene A lipoprotein; Region: TagA; pfam12561 458817010117 RDD family; Region: RDD; cl00746 458817010118 E3 ubiquitin-protein ligase SspH2; Provisional; Region: PRK15387 458817010119 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 458817010120 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 458817010121 active site 458817010122 Zn binding site [ion binding]; other site 458817010123 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 458817010124 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 458817010125 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 458817010126 substrate binding pocket [chemical binding]; other site 458817010127 membrane-bound complex binding site; other site 458817010128 hinge residues; other site 458817010129 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 458817010130 dimer interface [polypeptide binding]; other site 458817010131 conserved gate region; other site 458817010132 putative PBP binding loops; other site 458817010133 ABC-ATPase subunit interface; other site 458817010134 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 458817010135 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 458817010136 Walker A/P-loop; other site 458817010137 ATP binding site [chemical binding]; other site 458817010138 Q-loop/lid; other site 458817010139 ABC transporter signature motif; other site 458817010140 Walker B; other site 458817010141 D-loop; other site 458817010142 H-loop/switch region; other site 458817010143 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 458817010144 putative deacylase active site [active] 458817010145 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 458817010146 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 458817010147 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 458817010148 Nucleoside recognition; Region: Gate; cl00486 458817010149 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 458817010150 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; cl01353 458817010151 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 458817010152 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458817010153 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 458817010154 Domain of unknown function (DUF4092); Region: DUF4092; pfam13322 458817010155 Peptidase M60-like family; Region: M60-like; pfam13402 458817010156 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 458817010157 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 458817010158 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458817010159 Cupin domain; Region: Cupin_2; cl09118 458817010160 Helix-turn-helix domain; Region: HTH_18; pfam12833 458817010161 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 458817010162 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 458817010163 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 458817010164 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 458817010165 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 458817010166 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817010167 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817010168 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817010169 Helix-turn-helix domains; Region: HTH; cl00088 458817010170 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 458817010171 dimerization interface [polypeptide binding]; other site 458817010172 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 458817010173 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 458817010174 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 458817010175 Predicted permease; Region: DUF318; pfam03773 458817010176 Predicted permease; Region: DUF318; pfam03773 458817010177 Domain of unknown function; Region: DUF331; cl01149 458817010178 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 458817010179 DNA-binding site [nucleotide binding]; DNA binding site 458817010180 RNA-binding motif; other site 458817010181 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 458817010182 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 458817010183 putative active site [active] 458817010184 catalytic site [active] 458817010185 putative substrate binding site [chemical binding]; other site 458817010186 MatE; Region: MatE; cl10513 458817010187 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 458817010188 Helix-turn-helix domains; Region: HTH; cl00088 458817010189 DNA binding site [nucleotide binding] 458817010190 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 458817010191 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 458817010192 catalytic residues [active] 458817010193 hinge region; other site 458817010194 alpha helical domain; other site 458817010195 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 458817010196 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 458817010197 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 458817010198 Imelysin; Region: Peptidase_M75; cl09159 458817010199 Protein of unknown function (DUF2806); Region: DUF2806; cl12560 458817010200 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 458817010201 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 458817010202 ligand-binding site [chemical binding]; other site 458817010203 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 458817010204 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 458817010205 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 458817010206 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 458817010207 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 458817010208 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 458817010209 CysD dimerization site [polypeptide binding]; other site 458817010210 G1 box; other site 458817010211 putative GEF interaction site [polypeptide binding]; other site 458817010212 GTP/Mg2+ binding site [chemical binding]; other site 458817010213 Switch I region; other site 458817010214 G2 box; other site 458817010215 G3 box; other site 458817010216 Switch II region; other site 458817010217 G4 box; other site 458817010218 G5 box; other site 458817010219 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 458817010220 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 458817010221 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 458817010222 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 458817010223 Active Sites [active] 458817010224 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 458817010225 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 458817010226 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 458817010227 dimerization interface [polypeptide binding]; other site 458817010228 substrate binding site [chemical binding]; other site 458817010229 active site 458817010230 calcium binding site [ion binding]; other site 458817010231 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 458817010232 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 458817010233 ATP binding site [chemical binding]; other site 458817010234 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 458817010235 catalytic triad [active] 458817010236 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 458817010237 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 458817010238 Active Sites [active] 458817010239 sulfite reductase subunit beta; Provisional; Region: PRK13504 458817010240 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 458817010241 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 458817010242 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 458817010243 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 458817010244 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 458817010245 FAD binding pocket [chemical binding]; other site 458817010246 FAD binding motif [chemical binding]; other site 458817010247 catalytic residues [active] 458817010248 NAD binding pocket [chemical binding]; other site 458817010249 phosphate binding motif [ion binding]; other site 458817010250 beta-alpha-beta structure motif; other site 458817010251 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 458817010252 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 458817010253 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817010254 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 458817010255 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 458817010256 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 458817010257 MltA-interacting protein MipA; Region: MipA; cl01504 458817010258 Helix-turn-helix domains; Region: HTH; cl00088 458817010259 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 458817010260 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 458817010261 putative ribose interaction site [chemical binding]; other site 458817010262 putative ADP binding site [chemical binding]; other site 458817010263 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 458817010264 active site 458817010265 nucleotide binding site [chemical binding]; other site 458817010266 HIGH motif; other site 458817010267 KMSKS motif; other site 458817010268 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 458817010269 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 458817010270 putative acyl-acceptor binding pocket; other site 458817010271 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 458817010272 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 458817010273 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 458817010274 DNA binding residues [nucleotide binding] 458817010275 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 458817010276 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 458817010277 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 458817010278 GAF domain; Region: GAF; cl15785 458817010279 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 458817010280 Walker A motif; other site 458817010281 ATP binding site [chemical binding]; other site 458817010282 Walker B motif; other site 458817010283 arginine finger; other site 458817010284 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 458817010285 StbA protein; Region: StbA; pfam06406 458817010286 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 458817010287 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458817010288 catalytic residue [active] 458817010289 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 458817010290 gluconate transporter; Region: gntP; TIGR00791 458817010291 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 458817010292 Helix-turn-helix domains; Region: HTH; cl00088 458817010293 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 458817010294 dimerization interface [polypeptide binding]; other site 458817010295 substrate binding pocket [chemical binding]; other site 458817010296 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 458817010297 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 458817010298 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 458817010299 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 458817010300 ATP binding site [chemical binding]; other site 458817010301 Mg2+ binding site [ion binding]; other site 458817010302 G-X-G motif; other site 458817010303 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 458817010304 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 458817010305 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 458817010306 metal binding triad; other site 458817010307 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 458817010308 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 458817010309 metal binding triad; other site 458817010310 spermidine synthase; Provisional; Region: PRK03612 458817010311 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; cl15754 458817010312 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; cl01551 458817010313 PspA/IM30 family; Region: PspA_IM30; pfam04012 458817010314 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 458817010315 Ion transport protein; Region: Ion_trans; pfam00520 458817010316 Ion channel; Region: Ion_trans_2; cl11596 458817010317 Autophagy protein Apg6; Region: APG6; pfam04111 458817010318 Uncharacterized conserved protein [Function unknown]; Region: COG3025 458817010319 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 458817010320 putative active site [active] 458817010321 putative metal binding residues [ion binding]; other site 458817010322 signature motif; other site 458817010323 putative triphosphate binding site [ion binding]; other site 458817010324 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 458817010325 Phosphate transporter family; Region: PHO4; cl00396 458817010326 Phosphate transporter family; Region: PHO4; cl00396 458817010327 SH3 domain-containing protein; Provisional; Region: PRK10884 458817010328 Bacterial SH3 domain; Region: SH3_3; cl02551 458817010329 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 458817010330 Proline dehydrogenase; Region: Pro_dh; cl03282 458817010331 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 458817010332 Glutamate binding site [chemical binding]; other site 458817010333 NAD binding site [chemical binding]; other site 458817010334 catalytic residues [active] 458817010335 Cache domain; Region: Cache_1; pfam02743 458817010336 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 458817010337 dimerization interface [polypeptide binding]; other site 458817010338 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 458817010339 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817010340 dimer interface [polypeptide binding]; other site 458817010341 putative CheW interface [polypeptide binding]; other site 458817010342 Cache domain; Region: Cache_1; pfam02743 458817010343 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 458817010344 dimerization interface [polypeptide binding]; other site 458817010345 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 458817010346 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817010347 dimer interface [polypeptide binding]; other site 458817010348 putative CheW interface [polypeptide binding]; other site 458817010349 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 458817010350 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817010351 Walker A/P-loop; other site 458817010352 ATP binding site [chemical binding]; other site 458817010353 Q-loop/lid; other site 458817010354 ABC transporter signature motif; other site 458817010355 Walker B; other site 458817010356 D-loop; other site 458817010357 H-loop/switch region; other site 458817010358 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 458817010359 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 458817010360 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817010361 Walker A/P-loop; other site 458817010362 ATP binding site [chemical binding]; other site 458817010363 Q-loop/lid; other site 458817010364 ABC transporter signature motif; other site 458817010365 Walker B; other site 458817010366 D-loop; other site 458817010367 H-loop/switch region; other site 458817010368 Protein of unknown function (DUF3622); Region: DUF3622; pfam12286 458817010369 helicase 45; Provisional; Region: PTZ00424 458817010370 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 458817010371 ATP binding site [chemical binding]; other site 458817010372 Mg++ binding site [ion binding]; other site 458817010373 motif III; other site 458817010374 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 458817010375 nucleotide binding region [chemical binding]; other site 458817010376 ATP-binding site [chemical binding]; other site 458817010377 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 458817010378 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 458817010379 ATP binding site [chemical binding]; other site 458817010380 Mg++ binding site [ion binding]; other site 458817010381 motif III; other site 458817010382 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 458817010383 nucleotide binding region [chemical binding]; other site 458817010384 ATP-binding site [chemical binding]; other site 458817010385 DbpA RNA binding domain; Region: DbpA; pfam03880 458817010386 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 458817010387 Probable metal-binding protein (DUF2387); Region: DUF2387; cl01410 458817010388 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 458817010389 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 458817010390 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 458817010391 ABC transporter; Region: ABC_tran_2; pfam12848 458817010392 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 458817010393 Protein of unknown function (DUF2390); Region: DUF2390; cl02376 458817010394 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 458817010395 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 458817010396 putative hydrolase; Provisional; Region: PRK10985 458817010397 Uncharacterized protein family (UPF0270); Region: UPF0270; cl01180 458817010398 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817010399 active site 458817010400 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 458817010401 Sel1 repeat; Region: Sel1; cl02723 458817010402 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 458817010403 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 458817010404 ligand binding site [chemical binding]; other site 458817010405 flexible hinge region; other site 458817010406 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 458817010407 putative switch regulator; other site 458817010408 non-specific DNA interactions [nucleotide binding]; other site 458817010409 DNA binding site [nucleotide binding] 458817010410 sequence specific DNA binding site [nucleotide binding]; other site 458817010411 putative cAMP binding site [chemical binding]; other site 458817010412 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 458817010413 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 458817010414 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817010415 active site 458817010416 phosphorylation site [posttranslational modification] 458817010417 intermolecular recognition site; other site 458817010418 dimerization interface [polypeptide binding]; other site 458817010419 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 458817010420 DNA binding site [nucleotide binding] 458817010421 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 458817010422 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 458817010423 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 458817010424 dimer interface [polypeptide binding]; other site 458817010425 phosphorylation site [posttranslational modification] 458817010426 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 458817010427 ATP binding site [chemical binding]; other site 458817010428 Mg2+ binding site [ion binding]; other site 458817010429 G-X-G motif; other site 458817010430 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 458817010431 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 458817010432 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 458817010433 NAD(P) binding site [chemical binding]; other site 458817010434 catalytic residues [active] 458817010435 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 458817010436 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 458817010437 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 458817010438 inhibitor-cofactor binding pocket; inhibition site 458817010439 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817010440 catalytic residue [active] 458817010441 HDOD domain; Region: HDOD; pfam08668 458817010442 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 458817010443 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458817010444 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 458817010445 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 458817010446 glutamine binding [chemical binding]; other site 458817010447 catalytic triad [active] 458817010448 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 458817010449 Gram-negative bacterial tonB protein; Region: TonB; cl10048 458817010450 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 458817010451 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 458817010452 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 458817010453 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 458817010454 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 458817010455 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 458817010456 Walker A/P-loop; other site 458817010457 ATP binding site [chemical binding]; other site 458817010458 Q-loop/lid; other site 458817010459 ABC transporter signature motif; other site 458817010460 Walker B; other site 458817010461 D-loop; other site 458817010462 H-loop/switch region; other site 458817010463 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817010464 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 458817010465 ABC-ATPase subunit interface; other site 458817010466 dimer interface [polypeptide binding]; other site 458817010467 putative PBP binding regions; other site 458817010468 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 458817010469 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 458817010470 intersubunit interface [polypeptide binding]; other site 458817010471 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 458817010472 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 458817010473 N-terminal plug; other site 458817010474 ligand-binding site [chemical binding]; other site 458817010475 Stringent starvation protein B; Region: SspB; cl01120 458817010476 stringent starvation protein A; Provisional; Region: sspA; PRK09481 458817010477 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 458817010478 C-terminal domain interface [polypeptide binding]; other site 458817010479 putative GSH binding site (G-site) [chemical binding]; other site 458817010480 dimer interface [polypeptide binding]; other site 458817010481 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 458817010482 dimer interface [polypeptide binding]; other site 458817010483 N-terminal domain interface [polypeptide binding]; other site 458817010484 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 458817010485 cytochrome b; Provisional; Region: CYTB; MTH00145 458817010486 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 458817010487 Qi binding site; other site 458817010488 intrachain domain interface; other site 458817010489 interchain domain interface [polypeptide binding]; other site 458817010490 heme bH binding site [chemical binding]; other site 458817010491 heme bL binding site [chemical binding]; other site 458817010492 Qo binding site; other site 458817010493 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 458817010494 interchain domain interface [polypeptide binding]; other site 458817010495 intrachain domain interface; other site 458817010496 Qi binding site; other site 458817010497 Qo binding site; other site 458817010498 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 458817010499 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 458817010500 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 458817010501 [2Fe-2S] cluster binding site [ion binding]; other site 458817010502 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 458817010503 FtsH protease regulator HflC; Provisional; Region: PRK11029 458817010504 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 458817010505 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 458817010506 HflK protein; Region: hflK; TIGR01933 458817010507 GTPase HflX; Provisional; Region: PRK11058 458817010508 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 458817010509 HflX GTPase family; Region: HflX; cd01878 458817010510 G1 box; other site 458817010511 GTP/Mg2+ binding site [chemical binding]; other site 458817010512 Switch I region; other site 458817010513 G2 box; other site 458817010514 G3 box; other site 458817010515 Switch II region; other site 458817010516 G4 box; other site 458817010517 G5 box; other site 458817010518 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 458817010519 Sm1 motif; other site 458817010520 intra - hexamer interaction site; other site 458817010521 inter - hexamer interaction site [polypeptide binding]; other site 458817010522 nucleotide binding pocket [chemical binding]; other site 458817010523 Sm2 motif; other site 458817010524 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817010525 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 458817010526 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 458817010527 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 458817010528 ATP binding site [chemical binding]; other site 458817010529 Mg2+ binding site [ion binding]; other site 458817010530 G-X-G motif; other site 458817010531 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 458817010532 ATP binding site [chemical binding]; other site 458817010533 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 458817010534 AMIN domain; Region: AMIN; pfam11741 458817010535 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 458817010536 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 458817010537 active site 458817010538 metal binding site [ion binding]; metal-binding site 458817010539 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 458817010540 putative carbohydrate kinase; Provisional; Region: PRK10565 458817010541 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 458817010542 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 458817010543 putative substrate binding site [chemical binding]; other site 458817010544 putative ATP binding site [chemical binding]; other site 458817010545 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 458817010546 dinuclear metal binding motif [ion binding]; other site 458817010547 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 458817010548 putative active site [active] 458817010549 putative substrate binding site [chemical binding]; other site 458817010550 catalytic site [active] 458817010551 dimer interface [polypeptide binding]; other site 458817010552 GTPase RsgA; Reviewed; Region: PRK12288 458817010553 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 458817010554 RNA binding site [nucleotide binding]; other site 458817010555 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 458817010556 GTPase/Zn-binding domain interface [polypeptide binding]; other site 458817010557 GTP/Mg2+ binding site [chemical binding]; other site 458817010558 G4 box; other site 458817010559 G5 box; other site 458817010560 G1 box; other site 458817010561 Switch I region; other site 458817010562 G2 box; other site 458817010563 G3 box; other site 458817010564 Switch II region; other site 458817010565 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 458817010566 putative mechanosensitive channel protein; Provisional; Region: PRK10929 458817010567 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 458817010568 Mechanosensitive ion channel; Region: MS_channel; pfam00924 458817010569 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 458817010570 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 458817010571 active site 458817010572 catalytic site [active] 458817010573 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 458817010574 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817010575 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 458817010576 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 458817010577 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 458817010578 CAP-like domain; other site 458817010579 active site 458817010580 primary dimer interface [polypeptide binding]; other site 458817010581 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 458817010582 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 458817010583 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 458817010584 ATP binding site [chemical binding]; other site 458817010585 Mg2+ binding site [ion binding]; other site 458817010586 G-X-G motif; other site 458817010587 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 458817010588 anchoring element; other site 458817010589 dimer interface [polypeptide binding]; other site 458817010590 ATP binding site [chemical binding]; other site 458817010591 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 458817010592 active site 458817010593 metal binding site [ion binding]; metal-binding site 458817010594 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 458817010595 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 458817010596 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 458817010597 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 458817010598 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 458817010599 active site 458817010600 metal binding site [ion binding]; metal-binding site 458817010601 hexamer interface [polypeptide binding]; other site 458817010602 Protein of unknown function (DUF1249); Region: DUF1249; cl01223 458817010603 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 458817010604 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 458817010605 dimer interface [polypeptide binding]; other site 458817010606 ADP-ribose binding site [chemical binding]; other site 458817010607 active site 458817010608 nudix motif; other site 458817010609 metal binding site [ion binding]; metal-binding site 458817010610 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 458817010611 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; cl11978 458817010612 Protein of unknown function (DUF461); Region: DUF461; cl01071 458817010613 enoyl-CoA hydratase; Provisional; Region: PRK06688 458817010614 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 458817010615 substrate binding site [chemical binding]; other site 458817010616 oxyanion hole (OAH) forming residues; other site 458817010617 trimer interface [polypeptide binding]; other site 458817010618 PspC domain; Region: PspC; cl00864 458817010619 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 458817010620 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 458817010621 FMN binding site [chemical binding]; other site 458817010622 active site 458817010623 catalytic residues [active] 458817010624 substrate binding site [chemical binding]; other site 458817010625 Helix-turn-helix domains; Region: HTH; cl00088 458817010626 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 458817010627 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 458817010628 dimerization interface [polypeptide binding]; other site 458817010629 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 458817010630 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 458817010631 heme-binding residues [chemical binding]; other site 458817010632 Surface antigen; Region: Bac_surface_Ag; cl03097 458817010633 alanine racemase; Reviewed; Region: alr; PRK00053 458817010634 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 458817010635 active site 458817010636 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 458817010637 substrate binding site [chemical binding]; other site 458817010638 catalytic residues [active] 458817010639 dimer interface [polypeptide binding]; other site 458817010640 replicative DNA helicase; Provisional; Region: PRK08840 458817010641 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 458817010642 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 458817010643 Walker A motif; other site 458817010644 ATP binding site [chemical binding]; other site 458817010645 Walker B motif; other site 458817010646 DNA binding loops [nucleotide binding] 458817010647 Peptidase S46; Region: Peptidase_S46; pfam10459 458817010648 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 458817010649 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 458817010650 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 458817010651 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 458817010652 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 458817010653 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 458817010654 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 458817010655 Protein of unknown function, DUF481; Region: DUF481; cl01213 458817010656 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 458817010657 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 458817010658 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 458817010659 exoribonuclease R; Provisional; Region: PRK11642 458817010660 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 458817010661 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 458817010662 RNB domain; Region: RNB; pfam00773 458817010663 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 458817010664 RNA binding site [nucleotide binding]; other site 458817010665 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 458817010666 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 458817010667 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 458817010668 GDP-binding site [chemical binding]; other site 458817010669 ACT binding site; other site 458817010670 IMP binding site; other site 458817010671 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 458817010672 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 458817010673 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 458817010674 23S rRNA interface [nucleotide binding]; other site 458817010675 L3 interface [polypeptide binding]; other site 458817010676 Predicted ATPase [General function prediction only]; Region: COG1485 458817010677 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 458817010678 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 458817010679 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 458817010680 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 458817010681 protein binding site [polypeptide binding]; other site 458817010682 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 458817010683 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 458817010684 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 458817010685 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 458817010686 protein binding site [polypeptide binding]; other site 458817010687 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 458817010688 Response regulator receiver domain; Region: Response_reg; pfam00072 458817010689 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817010690 active site 458817010691 phosphorylation site [posttranslational modification] 458817010692 intermolecular recognition site; other site 458817010693 dimerization interface [polypeptide binding]; other site 458817010694 Helix-turn-helix domains; Region: HTH; cl00088 458817010695 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 458817010696 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 458817010697 dimer interface [polypeptide binding]; other site 458817010698 phosphorylation site [posttranslational modification] 458817010699 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 458817010700 ATP binding site [chemical binding]; other site 458817010701 Mg2+ binding site [ion binding]; other site 458817010702 G-X-G motif; other site 458817010703 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 458817010704 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 458817010705 hinge; other site 458817010706 active site 458817010707 BolA-like protein; Region: BolA; cl00386 458817010708 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 458817010709 anti sigma factor interaction site; other site 458817010710 regulatory phosphorylation site [posttranslational modification]; other site 458817010711 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 458817010712 mce related protein; Region: MCE; pfam02470 458817010713 Permease; Region: Permease; cl00510 458817010714 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 458817010715 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 458817010716 Walker A/P-loop; other site 458817010717 ATP binding site [chemical binding]; other site 458817010718 Q-loop/lid; other site 458817010719 ABC transporter signature motif; other site 458817010720 Walker B; other site 458817010721 D-loop; other site 458817010722 H-loop/switch region; other site 458817010723 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 458817010724 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 458817010725 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 458817010726 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 458817010727 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 458817010728 putative active site [active] 458817010729 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 458817010730 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 458817010731 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 458817010732 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 458817010733 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 458817010734 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 458817010735 OstA-like protein; Region: OstA; cl00844 458817010736 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 458817010737 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 458817010738 Walker A/P-loop; other site 458817010739 ATP binding site [chemical binding]; other site 458817010740 Q-loop/lid; other site 458817010741 ABC transporter signature motif; other site 458817010742 Walker B; other site 458817010743 D-loop; other site 458817010744 H-loop/switch region; other site 458817010745 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 458817010746 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 458817010747 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 458817010748 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 458817010749 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 458817010750 30S subunit binding site; other site 458817010751 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 458817010752 active site 458817010753 phosphorylation site [posttranslational modification] 458817010754 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 458817010755 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 458817010756 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 458817010757 dimerization domain swap beta strand [polypeptide binding]; other site 458817010758 regulatory protein interface [polypeptide binding]; other site 458817010759 active site 458817010760 regulatory phosphorylation site [posttranslational modification]; other site 458817010761 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 458817010762 MgtE intracellular N domain; Region: MgtE_N; cl15244 458817010763 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 458817010764 Divalent cation transporter; Region: MgtE; cl00786 458817010765 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 458817010766 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 458817010767 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 458817010768 putative outer membrane lipoprotein; Provisional; Region: PRK10510 458817010769 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 458817010770 ligand binding site [chemical binding]; other site 458817010771 Family description; Region: VCBS; pfam13517 458817010772 Family description; Region: VCBS; pfam13517 458817010773 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458817010774 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 458817010775 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 458817010776 S-adenosylmethionine binding site [chemical binding]; other site 458817010777 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 458817010778 Major Facilitator Superfamily; Region: MFS_1; pfam07690 458817010779 putative substrate translocation pore; other site 458817010780 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 458817010781 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 458817010782 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 458817010783 S-adenosylmethionine binding site [chemical binding]; other site 458817010784 TOBE domain; Region: TOBE_2; cl01440 458817010785 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 458817010786 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 458817010787 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 458817010788 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 458817010789 Walker A/P-loop; other site 458817010790 ATP binding site [chemical binding]; other site 458817010791 Q-loop/lid; other site 458817010792 ABC transporter signature motif; other site 458817010793 Walker B; other site 458817010794 D-loop; other site 458817010795 H-loop/switch region; other site 458817010796 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 458817010797 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 458817010798 Walker A/P-loop; other site 458817010799 ATP binding site [chemical binding]; other site 458817010800 Q-loop/lid; other site 458817010801 ABC transporter signature motif; other site 458817010802 Walker B; other site 458817010803 D-loop; other site 458817010804 H-loop/switch region; other site 458817010805 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 458817010806 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 458817010807 putative PBP binding loops; other site 458817010808 ABC-ATPase subunit interface; other site 458817010809 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 458817010810 dimer interface [polypeptide binding]; other site 458817010811 conserved gate region; other site 458817010812 putative PBP binding loops; other site 458817010813 ABC-ATPase subunit interface; other site 458817010814 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_19; cd08518 458817010815 nickel responsive regulator; Provisional; Region: PRK00630 458817010816 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 458817010817 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 458817010818 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 458817010819 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 458817010820 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 458817010821 substrate binding site [chemical binding]; other site 458817010822 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 458817010823 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 458817010824 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458817010825 catalytic residue [active] 458817010826 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817010827 metal binding site [ion binding]; metal-binding site 458817010828 active site 458817010829 I-site; other site 458817010830 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 458817010831 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 458817010832 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 458817010833 substrate binding pocket [chemical binding]; other site 458817010834 membrane-bound complex binding site; other site 458817010835 hinge residues; other site 458817010836 Domain of unknown function (DUF1971); Region: DUF1971; cl01451 458817010837 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 458817010838 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458817010839 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 458817010840 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 458817010841 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 458817010842 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 458817010843 iron binding site [ion binding]; other site 458817010844 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 458817010845 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 458817010846 Cupin domain; Region: Cupin_2; cl09118 458817010847 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 458817010848 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 458817010849 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 458817010850 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 458817010851 dimer interface [polypeptide binding]; other site 458817010852 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817010853 catalytic residue [active] 458817010854 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 458817010855 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 458817010856 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817010857 homodimer interface [polypeptide binding]; other site 458817010858 catalytic residue [active] 458817010859 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 458817010860 GH18 domain of Chitinase D (ChiD). ChiD, a chitinase found in Bacillus circulans, hydrolyzes the 1,4-beta-linkages of N-acetylglucosamine in chitin and chitodextrins. The domain architecture of ChiD includes a catalytic glycosyl hydrolase family 18; Region: GH18_chitinase_D-like; cd02871 458817010861 putative active site [active] 458817010862 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 458817010863 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 458817010864 chitin/cellulose binding site [chemical binding]; other site 458817010865 N-acetylglucosamine-binding protein A; Reviewed; Region: PRK13211 458817010866 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cl00046 458817010867 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817010868 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817010869 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817010870 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 458817010871 Protein of unknown function (DUF2999); Region: DUF2999; pfam11212 458817010872 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 458817010873 Integral membrane protein TerC family; Region: TerC; cl10468 458817010874 Predicted transcriptional regulator, contains C-terminal CBS domains [Transcription]; Region: COG2524 458817010875 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 458817010876 Transporter associated domain; Region: CorC_HlyC; cl08393 458817010877 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 458817010878 Ligand Binding Site [chemical binding]; other site 458817010879 Surface antigen; Region: Bac_surface_Ag; cl03097 458817010880 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 458817010881 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 458817010882 substrate binding pocket [chemical binding]; other site 458817010883 membrane-bound complex binding site; other site 458817010884 hinge residues; other site 458817010885 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 458817010886 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 458817010887 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 458817010888 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 458817010889 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 458817010890 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 458817010891 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 458817010892 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 458817010893 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 458817010894 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 458817010895 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 458817010896 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 458817010897 BCCT family transporter; Region: BCCT; cl00569 458817010898 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 458817010899 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 458817010900 active site 458817010901 putative substrate binding pocket [chemical binding]; other site 458817010902 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 458817010903 Domain of unknown function DUF21; Region: DUF21; pfam01595 458817010904 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 458817010905 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 458817010906 Transporter associated domain; Region: CorC_HlyC; cl08393 458817010907 2',3'-cyclic-nucleotide 2'-phosphodiesterase; Region: CycNucDiestase; TIGR01390 458817010908 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 458817010909 active site 458817010910 metal binding site [ion binding]; metal-binding site 458817010911 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 458817010912 PAS fold; Region: PAS_4; pfam08448 458817010913 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817010914 metal binding site [ion binding]; metal-binding site 458817010915 active site 458817010916 I-site; other site 458817010917 chaperone protein DnaJ; Provisional; Region: PRK10767 458817010918 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 458817010919 HSP70 interaction site [polypeptide binding]; other site 458817010920 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 458817010921 substrate binding site [polypeptide binding]; other site 458817010922 dimer interface [polypeptide binding]; other site 458817010923 Domain of unknown function DUF1829; Region: DUF1829; pfam08862 458817010924 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 458817010925 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 458817010926 DNA binding site [nucleotide binding] 458817010927 Int/Topo IB signature motif; other site 458817010928 active site 458817010929 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 458817010930 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 458817010931 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 458817010932 catalytic residues [active] 458817010933 catalytic nucleophile [active] 458817010934 Presynaptic Site I dimer interface [polypeptide binding]; other site 458817010935 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 458817010936 Synaptic Flat tetramer interface [polypeptide binding]; other site 458817010937 Synaptic Site I dimer interface [polypeptide binding]; other site 458817010938 DNA binding site [nucleotide binding] 458817010939 Helix-turn-helix domains; Region: HTH; cl00088 458817010940 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 458817010941 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 458817010942 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 458817010943 ring oligomerisation interface [polypeptide binding]; other site 458817010944 ATP/Mg binding site [chemical binding]; other site 458817010945 stacking interactions; other site 458817010946 hinge regions; other site 458817010947 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 458817010948 oligomerisation interface [polypeptide binding]; other site 458817010949 mobile loop; other site 458817010950 roof hairpin; other site 458817010951 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 458817010952 MatE; Region: MatE; cl10513 458817010953 MatE; Region: MatE; cl10513 458817010954 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 458817010955 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 458817010956 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 458817010957 Cytochrome c; Region: Cytochrom_C; cl11414 458817010958 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817010959 Helix-turn-helix domains; Region: HTH; cl00088 458817010960 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 458817010961 putative effector binding pocket; other site 458817010962 dimerization interface [polypeptide binding]; other site 458817010963 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817010964 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817010965 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817010966 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 458817010967 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 458817010968 active site 458817010969 putative diguanylate cyclase YedQ; Provisional; Region: PRK15426 458817010970 Cache domain; Region: Cache_1; pfam02743 458817010971 PAS fold; Region: PAS_4; pfam08448 458817010972 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 458817010973 putative active site [active] 458817010974 heme pocket [chemical binding]; other site 458817010975 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 458817010976 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 458817010977 putative active site [active] 458817010978 heme pocket [chemical binding]; other site 458817010979 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 458817010980 dimer interface [polypeptide binding]; other site 458817010981 phosphorylation site [posttranslational modification] 458817010982 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 458817010983 ATP binding site [chemical binding]; other site 458817010984 Mg2+ binding site [ion binding]; other site 458817010985 G-X-G motif; other site 458817010986 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817010987 Response regulator receiver domain; Region: Response_reg; pfam00072 458817010988 active site 458817010989 phosphorylation site [posttranslational modification] 458817010990 intermolecular recognition site; other site 458817010991 dimerization interface [polypeptide binding]; other site 458817010992 Response regulator receiver domain; Region: Response_reg; pfam00072 458817010993 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817010994 active site 458817010995 phosphorylation site [posttranslational modification] 458817010996 intermolecular recognition site; other site 458817010997 dimerization interface [polypeptide binding]; other site 458817010998 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 458817010999 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 458817011000 putative active site [active] 458817011001 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817011002 ATP-dependent helicase HepA; Validated; Region: PRK04914 458817011003 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 458817011004 ATP binding site [chemical binding]; other site 458817011005 putative Mg++ binding site [ion binding]; other site 458817011006 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 458817011007 nucleotide binding region [chemical binding]; other site 458817011008 ATP-binding site [chemical binding]; other site 458817011009 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 458817011010 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 458817011011 enoyl-CoA hydratase; Provisional; Region: PRK07509 458817011012 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 458817011013 substrate binding site [chemical binding]; other site 458817011014 oxyanion hole (OAH) forming residues; other site 458817011015 trimer interface [polypeptide binding]; other site 458817011016 Response regulator receiver domain; Region: Response_reg; pfam00072 458817011017 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817011018 active site 458817011019 phosphorylation site [posttranslational modification] 458817011020 intermolecular recognition site; other site 458817011021 dimerization interface [polypeptide binding]; other site 458817011022 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 458817011023 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 458817011024 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817011025 metal binding site [ion binding]; metal-binding site 458817011026 active site 458817011027 I-site; other site 458817011028 RNase E inhibitor protein; Provisional; Region: PRK11191 458817011029 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 458817011030 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 458817011031 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 458817011032 putative acyl-acceptor binding pocket; other site 458817011033 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 458817011034 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 458817011035 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 458817011036 putative ligand binding site [chemical binding]; other site 458817011037 Mechanosensitive ion channel; Region: MS_channel; pfam00924 458817011038 formate--tetrahydrofolate ligase; Provisional; Region: PRK13506 458817011039 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 458817011040 Potassium binding sites [ion binding]; other site 458817011041 Cesium cation binding sites [ion binding]; other site 458817011042 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 458817011043 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 458817011044 active site 2 [active] 458817011045 active site 1 [active] 458817011046 TraB family; Region: TraB; cl12050 458817011047 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 458817011048 Protein of unknown function (DUF4240); Region: DUF4240; pfam14024 458817011049 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 458817011050 phosphorylation site [posttranslational modification] 458817011051 intermolecular recognition site; other site 458817011052 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 458817011053 IHF dimer interface [polypeptide binding]; other site 458817011054 IHF - DNA interface [nucleotide binding]; other site 458817011055 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 458817011056 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 458817011057 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 458817011058 Major Facilitator Superfamily; Region: MFS_1; pfam07690 458817011059 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 458817011060 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 458817011061 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817011062 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 458817011063 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 458817011064 Membrane transport protein; Region: Mem_trans; cl09117 458817011065 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 458817011066 dimerization interface [polypeptide binding]; other site 458817011067 putative DNA binding site [nucleotide binding]; other site 458817011068 putative Zn2+ binding site [ion binding]; other site 458817011069 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458817011070 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 458817011071 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 458817011072 Protein of unknown function (DUF615); Region: DUF615; cl01147 458817011073 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 458817011074 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 458817011075 ABC-2 type transporter; Region: ABC2_membrane; cl11417 458817011076 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 458817011077 ABC-2 type transporter; Region: ABC2_membrane; cl11417 458817011078 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 458817011079 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817011080 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817011081 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 458817011082 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 458817011083 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 458817011084 Predicted amidohydrolase [General function prediction only]; Region: COG0388 458817011085 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 458817011086 putative active site [active] 458817011087 catalytic triad [active] 458817011088 dimer interface [polypeptide binding]; other site 458817011089 TIGR02099 family protein; Region: TIGR02099 458817011090 AsmA-like C-terminal region; Region: AsmA_2; cl15864 458817011091 ribonuclease G; Provisional; Region: PRK11712 458817011092 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 458817011093 homodimer interface [polypeptide binding]; other site 458817011094 oligonucleotide binding site [chemical binding]; other site 458817011095 Maf-like protein; Region: Maf; pfam02545 458817011096 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 458817011097 active site 458817011098 dimer interface [polypeptide binding]; other site 458817011099 rod shape-determining protein MreD; Region: MreD; cl01087 458817011100 rod shape-determining protein MreC; Provisional; Region: PRK13922 458817011101 rod shape-determining protein MreC; Region: MreC; pfam04085 458817011102 rod shape-determining protein MreB; Provisional; Region: PRK13927 458817011103 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 458817011104 ATP binding site [chemical binding]; other site 458817011105 profilin binding site; other site 458817011106 PA14 domain; Region: PA14; cl08459 458817011107 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 458817011108 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 458817011109 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 458817011110 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 458817011111 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 458817011112 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 458817011113 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 458817011114 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 458817011115 Walker A motif; other site 458817011116 ATP binding site [chemical binding]; other site 458817011117 Walker B motif; other site 458817011118 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 458817011119 TPR motif; other site 458817011120 binding surface 458817011121 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 458817011122 binding surface 458817011123 Tetratricopeptide repeat; Region: TPR_16; pfam13432 458817011124 TPR motif; other site 458817011125 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 458817011126 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 458817011127 Walker A motif; other site 458817011128 ATP binding site [chemical binding]; other site 458817011129 Walker B motif; other site 458817011130 arginine finger; other site 458817011131 outer membrane porin HofQ; Provisional; Region: hofQ; PRK10560 458817011132 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 458817011133 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 458817011134 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 458817011135 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 458817011136 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 458817011137 regulatory protein CsrD; Provisional; Region: PRK11059 458817011138 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817011139 metal binding site [ion binding]; metal-binding site 458817011140 active site 458817011141 I-site; other site 458817011142 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 458817011143 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 458817011144 Malic enzyme, N-terminal domain; Region: malic; pfam00390 458817011145 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 458817011146 putative NAD(P) binding site [chemical binding]; other site 458817011147 Staphylococcal nuclease homologues; Region: SNc; smart00318 458817011148 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 458817011149 Catalytic site; other site 458817011150 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 458817011151 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 458817011152 primosome assembly protein PriA; Validated; Region: PRK05580 458817011153 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 458817011154 ATP binding site [chemical binding]; other site 458817011155 putative Mg++ binding site [ion binding]; other site 458817011156 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817011157 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 458817011158 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 458817011159 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 458817011160 active site 458817011161 HIGH motif; other site 458817011162 KMSK motif region; other site 458817011163 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 458817011164 tRNA binding surface [nucleotide binding]; other site 458817011165 anticodon binding site; other site 458817011166 Sporulation related domain; Region: SPOR; cl10051 458817011167 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 458817011168 active site 458817011169 HslU subunit interaction site [polypeptide binding]; other site 458817011170 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 458817011171 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 458817011172 Walker A motif; other site 458817011173 ATP binding site [chemical binding]; other site 458817011174 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817011175 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 458817011176 Protein of unknown function (DUF971); Region: DUF971; cl01414 458817011177 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 458817011178 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 458817011179 putative transporter; Provisional; Region: PRK03699 458817011180 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 458817011181 putative substrate translocation pore; other site 458817011182 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 458817011183 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 458817011184 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 458817011185 catalytic triad [active] 458817011186 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 458817011187 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 458817011188 putative active site [active] 458817011189 metal binding site [ion binding]; metal-binding site 458817011190 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 458817011191 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 458817011192 NAD(P) binding site [chemical binding]; other site 458817011193 catalytic residues [active] 458817011194 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 458817011195 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 458817011196 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 458817011197 Arginase family; Region: Arginase; cl00306 458817011198 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 458817011199 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 458817011200 S-adenosylmethionine binding site [chemical binding]; other site 458817011201 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 458817011202 SCP-2 sterol transfer family; Region: SCP2; cl01225 458817011203 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 458817011204 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 458817011205 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 458817011206 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 458817011207 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 458817011208 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 458817011209 active site 458817011210 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 458817011211 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 458817011212 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817011213 metal binding site [ion binding]; metal-binding site 458817011214 active site 458817011215 I-site; other site 458817011216 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 458817011217 dimer interface [polypeptide binding]; other site 458817011218 allosteric magnesium binding site [ion binding]; other site 458817011219 active site 458817011220 aspartate-rich active site metal binding site; other site 458817011221 Schiff base residues; other site 458817011222 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 458817011223 catalytic residues [active] 458817011224 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 458817011225 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 458817011226 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 458817011227 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 458817011228 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 458817011229 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 458817011230 ATP binding site [chemical binding]; other site 458817011231 Mg++ binding site [ion binding]; other site 458817011232 motif III; other site 458817011233 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 458817011234 nucleotide binding region [chemical binding]; other site 458817011235 ATP-binding site [chemical binding]; other site 458817011236 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 458817011237 catalytic residues [active] 458817011238 transcription termination factor Rho; Provisional; Region: rho; PRK09376 458817011239 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 458817011240 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 458817011241 RNA binding site [nucleotide binding]; other site 458817011242 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 458817011243 multimer interface [polypeptide binding]; other site 458817011244 Walker A motif; other site 458817011245 ATP binding site [chemical binding]; other site 458817011246 Walker B motif; other site 458817011247 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817011248 Helix-turn-helix domains; Region: HTH; cl00088 458817011249 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 458817011250 putative effector binding pocket; other site 458817011251 dimerization interface [polypeptide binding]; other site 458817011252 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 458817011253 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; cl00159 458817011254 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 458817011255 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817011256 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 458817011257 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 458817011258 Iron-sulfur protein interface; other site 458817011259 proximal heme binding site [chemical binding]; other site 458817011260 distal heme binding site [chemical binding]; other site 458817011261 dimer interface [polypeptide binding]; other site 458817011262 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13554 458817011263 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 458817011264 Iron-sulfur protein interface; other site 458817011265 proximal heme binding site [chemical binding]; other site 458817011266 distal heme binding site [chemical binding]; other site 458817011267 dimer interface [polypeptide binding]; other site 458817011268 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 458817011269 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 458817011270 S-adenosylmethionine binding site [chemical binding]; other site 458817011271 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 458817011272 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 458817011273 FMN binding site [chemical binding]; other site 458817011274 active site 458817011275 catalytic residues [active] 458817011276 substrate binding site [chemical binding]; other site 458817011277 Helix-turn-helix domains; Region: HTH; cl00088 458817011278 multifunctional aminopeptidase A; Provisional; Region: PRK00913 458817011279 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 458817011280 interface (dimer of trimers) [polypeptide binding]; other site 458817011281 Substrate-binding/catalytic site; other site 458817011282 Zn-binding sites [ion binding]; other site 458817011283 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 458817011284 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 458817011285 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 458817011286 carboxyltransferase (CT) interaction site; other site 458817011287 biotinylation site [posttranslational modification]; other site 458817011288 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 458817011289 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 458817011290 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 458817011291 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 458817011292 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 458817011293 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 458817011294 motif II; other site 458817011295 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 458817011296 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 458817011297 DNA binding site [nucleotide binding] 458817011298 Int/Topo IB signature motif; other site 458817011299 active site 458817011300 GAF domain; Region: GAF; cl15785 458817011301 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 458817011302 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 458817011303 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 458817011304 diaminopimelate decarboxylase; Region: lysA; TIGR01048 458817011305 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 458817011306 active site 458817011307 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 458817011308 substrate binding site [chemical binding]; other site 458817011309 catalytic residues [active] 458817011310 dimer interface [polypeptide binding]; other site 458817011311 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate in...; Region: Frataxin; cl00238 458817011312 putative iron binding site [ion binding]; other site 458817011313 adenylate cyclase; Provisional; Region: cyaA; PRK09450 458817011314 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 458817011315 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 458817011316 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 458817011317 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 458817011318 domain interfaces; other site 458817011319 active site 458817011320 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 458817011321 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 458817011322 active site 458817011323 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 458817011324 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 458817011325 HemY protein N-terminus; Region: HemY_N; pfam07219 458817011326 VCBS repeat; Region: VCBS_repeat; TIGR01965 458817011327 VCBS repeat; Region: VCBS_repeat; TIGR01965 458817011328 VCBS repeat; Region: VCBS_repeat; TIGR01965 458817011329 VCBS repeat; Region: VCBS_repeat; TIGR01965 458817011330 VCBS repeat; Region: VCBS_repeat; TIGR01965 458817011331 VCBS repeat; Region: VCBS_repeat; TIGR01965 458817011332 VCBS repeat; Region: VCBS_repeat; TIGR01965 458817011333 VCBS repeat; Region: VCBS_repeat; TIGR01965 458817011334 VCBS repeat; Region: VCBS_repeat; TIGR01965 458817011335 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 458817011336 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 458817011337 Ca2+ binding site [ion binding]; other site 458817011338 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 458817011339 metal ion-dependent adhesion site (MIDAS); other site 458817011340 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 458817011341 type 1 secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 458817011342 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39_likeD; cd02421 458817011343 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 458817011344 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 458817011345 ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two...; Region: ABCC_bacteriocin_exporters; cd03245 458817011346 Walker A/P-loop; other site 458817011347 ATP binding site [chemical binding]; other site 458817011348 Q-loop/lid; other site 458817011349 ABC transporter signature motif; other site 458817011350 Walker B; other site 458817011351 D-loop; other site 458817011352 H-loop/switch region; other site 458817011353 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 458817011354 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817011355 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817011356 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 458817011357 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 458817011358 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 458817011359 ligand binding site [chemical binding]; other site 458817011360 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 458817011361 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 458817011362 dimerization interface [polypeptide binding]; other site 458817011363 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817011364 metal binding site [ion binding]; metal-binding site 458817011365 active site 458817011366 I-site; other site 458817011367 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 458817011368 GAF domain; Region: GAF_2; pfam13185 458817011369 GAF domain; Region: GAF; cl15785 458817011370 GAF domain; Region: GAF; cl15785 458817011371 GAF domain; Region: GAF_2; pfam13185 458817011372 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817011373 metal binding site [ion binding]; metal-binding site 458817011374 active site 458817011375 I-site; other site 458817011376 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 458817011377 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 458817011378 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817011379 Family description; Region: UvrD_C_2; cl15862 458817011380 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 458817011381 Helix-turn-helix domains; Region: HTH; cl00088 458817011382 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817011383 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817011384 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817011385 multidrug efflux protein; Reviewed; Region: PRK09579 458817011386 Membrane fusogenic activity; Region: BMFP; cl01115 458817011387 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 458817011388 active site 458817011389 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 458817011390 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 458817011391 putative DNA binding site [nucleotide binding]; other site 458817011392 putative Zn2+ binding site [ion binding]; other site 458817011393 Helix-turn-helix domains; Region: HTH; cl00088 458817011394 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 458817011395 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 458817011396 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 458817011397 N-terminal plug; other site 458817011398 ligand-binding site [chemical binding]; other site 458817011399 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 458817011400 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 458817011401 homodimer interface [polypeptide binding]; other site 458817011402 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817011403 catalytic residue [active] 458817011404 threonine dehydratase; Reviewed; Region: PRK09224 458817011405 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 458817011406 tetramer interface [polypeptide binding]; other site 458817011407 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817011408 catalytic residue [active] 458817011409 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 458817011410 putative Ile/Val binding site [chemical binding]; other site 458817011411 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 458817011412 putative Ile/Val binding site [chemical binding]; other site 458817011413 Dehydratase family; Region: ILVD_EDD; cl00340 458817011414 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 458817011415 homodimer interface [polypeptide binding]; other site 458817011416 substrate-cofactor binding pocket; other site 458817011417 catalytic residue [active] 458817011418 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 458817011419 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 458817011420 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 458817011421 PYR/PP interface [polypeptide binding]; other site 458817011422 dimer interface [polypeptide binding]; other site 458817011423 TPP binding site [chemical binding]; other site 458817011424 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 458817011425 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 458817011426 TPP-binding site [chemical binding]; other site 458817011427 dimer interface [polypeptide binding]; other site 458817011428 ketol-acid reductoisomerase; Validated; Region: PRK05225 458817011429 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817011430 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 458817011431 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 458817011432 Helix-turn-helix domains; Region: HTH; cl00088 458817011433 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 458817011434 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 458817011435 putative dimerization interface [polypeptide binding]; other site 458817011436 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817011437 metal binding site [ion binding]; metal-binding site 458817011438 active site 458817011439 I-site; other site 458817011440 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 458817011441 Helix-turn-helix domains; Region: HTH; cl00088 458817011442 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 458817011443 substrate binding pocket [chemical binding]; other site 458817011444 dimerization interface [polypeptide binding]; other site 458817011445 Helix-turn-helix domains; Region: HTH; cl00088 458817011446 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 458817011447 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817011448 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 458817011449 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817011450 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 458817011451 active sites [active] 458817011452 tetramer interface [polypeptide binding]; other site 458817011453 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 458817011454 PAS fold; Region: PAS_3; pfam08447 458817011455 putative active site [active] 458817011456 heme pocket [chemical binding]; other site 458817011457 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 458817011458 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817011459 dimer interface [polypeptide binding]; other site 458817011460 putative CheW interface [polypeptide binding]; other site 458817011461 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 458817011462 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817011463 active site 458817011464 phosphorylation site [posttranslational modification] 458817011465 intermolecular recognition site; other site 458817011466 dimerization interface [polypeptide binding]; other site 458817011467 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 458817011468 DNA binding site [nucleotide binding] 458817011469 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 458817011470 dimer interface [polypeptide binding]; other site 458817011471 phosphorylation site [posttranslational modification] 458817011472 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 458817011473 Mg chelatase-related protein; Region: TIGR00368 458817011474 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 458817011475 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 458817011476 Walker A motif; other site 458817011477 ATP binding site [chemical binding]; other site 458817011478 Walker B motif; other site 458817011479 arginine finger; other site 458817011480 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 458817011481 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 458817011482 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 458817011483 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 458817011484 putative acyl-acceptor binding pocket; other site 458817011485 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 458817011486 putative acyl-acceptor binding pocket; other site 458817011487 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 458817011488 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 458817011489 homodimer interface [polypeptide binding]; other site 458817011490 substrate-cofactor binding pocket; other site 458817011491 catalytic residue [active] 458817011492 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 458817011493 Helix-turn-helix domains; Region: HTH; cl00088 458817011494 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817011495 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 458817011496 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817011497 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 458817011498 heme-binding residues [chemical binding]; other site 458817011499 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 458817011500 Cupin domain; Region: Cupin_2; cl09118 458817011501 Surface antigen; Region: Bac_surface_Ag; cl03097 458817011502 Protein of unknown function (DUF4056); Region: DUF4056; pfam13265 458817011503 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 458817011504 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 458817011505 nucleophilic elbow; other site 458817011506 catalytic triad; other site 458817011507 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458817011508 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 458817011509 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 458817011510 Protein of unknown function (DUF770); Region: DUF770; cl01402 458817011511 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 458817011512 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 458817011513 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 458817011514 catalytic residues [active] 458817011515 hinge region; other site 458817011516 alpha helical domain; other site 458817011517 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 458817011518 active site 458817011519 ATP binding site [chemical binding]; other site 458817011520 Protein of unknown function (DUF3630); Region: DUF3630; pfam12305 458817011521 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 458817011522 Nitrous oxide-stimulated promoter; Region: YgbA_NO; cl08119 458817011523 Response regulator receiver domain; Region: Response_reg; pfam00072 458817011524 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817011525 active site 458817011526 phosphorylation site [posttranslational modification] 458817011527 intermolecular recognition site; other site 458817011528 dimerization interface [polypeptide binding]; other site 458817011529 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 458817011530 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 458817011531 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 458817011532 anti sigma factor interaction site; other site 458817011533 regulatory phosphorylation site [posttranslational modification]; other site 458817011534 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 458817011535 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 458817011536 active site 458817011537 Substrate binding site; other site 458817011538 Mg++ binding site; other site 458817011539 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 458817011540 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 458817011541 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 458817011542 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 458817011543 DXD motif; other site 458817011544 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 458817011545 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 458817011546 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 458817011547 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 458817011548 active site 458817011549 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 458817011550 putative binding surface; other site 458817011551 active site 458817011552 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 458817011553 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 458817011554 Nitrate and nitrite sensing; Region: NIT; pfam08376 458817011555 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 458817011556 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 458817011557 dimer interface [polypeptide binding]; other site 458817011558 phosphorylation site [posttranslational modification] 458817011559 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 458817011560 ATP binding site [chemical binding]; other site 458817011561 Mg2+ binding site [ion binding]; other site 458817011562 G-X-G motif; other site 458817011563 Response regulator receiver domain; Region: Response_reg; pfam00072 458817011564 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817011565 active site 458817011566 phosphorylation site [posttranslational modification] 458817011567 intermolecular recognition site; other site 458817011568 dimerization interface [polypeptide binding]; other site 458817011569 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 458817011570 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458817011571 Family of unknown function (DUF500); Region: DUF500; cl01109 458817011572 tetrathionate reductase subunit A; Provisional; Region: PRK14991 458817011573 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 458817011574 putative [Fe4-S4] binding site [ion binding]; other site 458817011575 putative molybdopterin cofactor binding site [chemical binding]; other site 458817011576 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 458817011577 putative molybdopterin cofactor binding site; other site 458817011578 tetrathionate reductase subunit B; Provisional; Region: PRK14993 458817011579 4Fe-4S binding domain; Region: Fer4; cl02805 458817011580 Helix-turn-helix domains; Region: HTH; cl00088 458817011581 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 458817011582 dimerization interface [polypeptide binding]; other site 458817011583 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 458817011584 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 458817011585 putative [4Fe-4S] binding site [ion binding]; other site 458817011586 putative molybdopterin cofactor binding site [chemical binding]; other site 458817011587 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 458817011588 molybdopterin cofactor binding site; other site 458817011589 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 458817011590 4Fe-4S binding domain; Region: Fer4; cl02805 458817011591 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 458817011592 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 458817011593 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 458817011594 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 458817011595 trimer interface [polypeptide binding]; other site 458817011596 eyelet of channel; other site 458817011597 Cache domain; Region: Cache_1; pfam02743 458817011598 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 458817011599 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 458817011600 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817011601 dimer interface [polypeptide binding]; other site 458817011602 putative CheW interface [polypeptide binding]; other site 458817011603 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 458817011604 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 458817011605 putative acyl-acceptor binding pocket; other site 458817011606 Helix-turn-helix domains; Region: HTH; cl00088 458817011607 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 458817011608 dimerization interface [polypeptide binding]; other site 458817011609 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 458817011610 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 458817011611 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 458817011612 putative [4Fe-4S] binding site [ion binding]; other site 458817011613 putative molybdopterin cofactor binding site [chemical binding]; other site 458817011614 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 458817011615 molybdopterin cofactor binding site; other site 458817011616 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 458817011617 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 458817011618 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 458817011619 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 458817011620 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 458817011621 trimer interface [polypeptide binding]; other site 458817011622 eyelet of channel; other site 458817011623 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 458817011624 hypothetical protein; Provisional; Region: PRK01254 458817011625 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 458817011626 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 458817011627 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 458817011628 MAPEG family; Region: MAPEG; cl09190 458817011629 Uncharacterized conserved protein [Function unknown]; Region: COG2966 458817011630 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 458817011631 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 458817011632 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 458817011633 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 458817011634 Predicted esterase [General function prediction only]; Region: COG0627 458817011635 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458817011636 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 458817011637 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 458817011638 substrate binding site [chemical binding]; other site 458817011639 catalytic Zn binding site [ion binding]; other site 458817011640 NAD binding site [chemical binding]; other site 458817011641 structural Zn binding site [ion binding]; other site 458817011642 dimer interface [polypeptide binding]; other site 458817011643 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 458817011644 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 458817011645 putative alcohol dehydrogenase; Provisional; Region: PRK09860 458817011646 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 458817011647 dimer interface [polypeptide binding]; other site 458817011648 active site 458817011649 metal binding site [ion binding]; metal-binding site 458817011650 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817011651 Helix-turn-helix domains; Region: HTH; cl00088 458817011652 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 458817011653 putative effector binding pocket; other site 458817011654 putative dimerization interface [polypeptide binding]; other site 458817011655 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 458817011656 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817011657 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458817011658 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 458817011659 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 458817011660 FeS/SAM binding site; other site 458817011661 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 458817011662 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 458817011663 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 458817011664 Sulfatase; Region: Sulfatase; cl10460 458817011665 NMT1-like family; Region: NMT1_2; cl15260 458817011666 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 458817011667 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 458817011668 dimer interface [polypeptide binding]; other site 458817011669 conserved gate region; other site 458817011670 putative PBP binding loops; other site 458817011671 ABC-ATPase subunit interface; other site 458817011672 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 458817011673 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 458817011674 Walker A/P-loop; other site 458817011675 ATP binding site [chemical binding]; other site 458817011676 Q-loop/lid; other site 458817011677 ABC transporter signature motif; other site 458817011678 Walker B; other site 458817011679 D-loop; other site 458817011680 H-loop/switch region; other site 458817011681 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 458817011682 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 458817011683 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 458817011684 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 458817011685 Competence protein CoiA-like family; Region: CoiA; cl11541 458817011686 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 458817011687 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 458817011688 DNA binding site [nucleotide binding] 458817011689 Int/Topo IB signature motif; other site 458817011690 active site 458817011691 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 458817011692 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 458817011693 Walker A motif; other site 458817011694 ATP binding site [chemical binding]; other site 458817011695 Walker B motif; other site 458817011696 arginine finger; other site 458817011697 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 458817011698 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 458817011699 Walker A motif; other site 458817011700 ATP binding site [chemical binding]; other site 458817011701 Walker B motif; other site 458817011702 arginine finger; other site 458817011703 Protein of unknown function (DUF2787); Region: DUF2787; pfam10980 458817011704 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; cl15754 458817011705 DNA binding site [nucleotide binding] 458817011706 substrate interaction site [chemical binding]; other site 458817011707 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 458817011708 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; cl15754 458817011709 Protein of unknown function DUF3258; Region: DUF3258; pfam11646 458817011710 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 458817011711 Int/Topo IB signature motif; other site 458817011712 active site 458817011713 DNA binding site [nucleotide binding] 458817011714 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 458817011715 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 458817011716 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 458817011717 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 458817011718 putative ligand binding site [chemical binding]; other site 458817011719 Restriction endonuclease; Region: Mrr_cat; cl00516 458817011720 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 458817011721 dimer interface [polypeptide binding]; other site 458817011722 active site 458817011723 outer membrane lipoprotein; Provisional; Region: PRK11023 458817011724 BON domain; Region: BON; cl02771 458817011725 BON domain; Region: BON; cl02771 458817011726 EamA-like transporter family; Region: EamA; cl01037 458817011727 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 458817011728 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 458817011729 Helix-turn-helix domains; Region: HTH; cl00088 458817011730 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 458817011731 dimerization interface [polypeptide binding]; other site 458817011732 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 458817011733 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 458817011734 active site 458817011735 HIGH motif; other site 458817011736 dimer interface [polypeptide binding]; other site 458817011737 KMSKS motif; other site 458817011738 phosphoglycolate phosphatase; Provisional; Region: PRK13222 458817011739 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 458817011740 motif II; other site 458817011741 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 458817011742 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 458817011743 substrate binding site [chemical binding]; other site 458817011744 hexamer interface [polypeptide binding]; other site 458817011745 metal binding site [ion binding]; metal-binding site 458817011746 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 458817011747 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817011748 AAA domain; Region: AAA_22; pfam13401 458817011749 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 458817011750 Sporulation related domain; Region: SPOR; cl10051 458817011751 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 458817011752 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 458817011753 active site 458817011754 dimer interface [polypeptide binding]; other site 458817011755 metal binding site [ion binding]; metal-binding site 458817011756 shikimate kinase; Reviewed; Region: aroK; PRK00131 458817011757 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 458817011758 ADP binding site [chemical binding]; other site 458817011759 magnesium binding site [ion binding]; other site 458817011760 putative shikimate binding site; other site 458817011761 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 458817011762 Secretin and TonB N terminus short domain; Region: STN; cl06624 458817011763 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 458817011764 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 458817011765 Pilus assembly protein, PilP; Region: PilP; cl01235 458817011766 Pilus assembly protein, PilO; Region: PilO; cl01234 458817011767 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 458817011768 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 458817011769 Cell division protein FtsA; Region: FtsA; cl11496 458817011770 Competence protein A; Region: Competence_A; pfam11104 458817011771 Cell division protein FtsA; Region: FtsA; cl11496 458817011772 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 458817011773 Transglycosylase; Region: Transgly; cl07896 458817011774 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 458817011775 argininosuccinate lyase; Provisional; Region: PRK04833 458817011776 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 458817011777 active sites [active] 458817011778 tetramer interface [polypeptide binding]; other site 458817011779 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 458817011780 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 458817011781 ANP binding site [chemical binding]; other site 458817011782 Substrate Binding Site II [chemical binding]; other site 458817011783 Substrate Binding Site I [chemical binding]; other site 458817011784 ornithine carbamoyltransferase; Provisional; Region: PRK14805 458817011785 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 458817011786 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817011787 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 458817011788 nucleotide binding site [chemical binding]; other site 458817011789 substrate binding site [chemical binding]; other site 458817011790 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 458817011791 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817011792 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 458817011793 acetylornithine deacetylase; Provisional; Region: PRK05111 458817011794 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 458817011795 metal binding site [ion binding]; metal-binding site 458817011796 putative dimer interface [polypeptide binding]; other site 458817011797 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 458817011798 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 458817011799 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 458817011800 competence damage-inducible protein A; Provisional; Region: PRK00549 458817011801 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 458817011802 putative MPT binding site; other site 458817011803 Competence-damaged protein; Region: CinA; cl00666 458817011804 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 458817011805 catalytic residues [active] 458817011806 Cytochrome C biogenesis protein; Region: CcmH; cl01179 458817011807 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 458817011808 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 458817011809 catalytic residues [active] 458817011810 central insert; other site 458817011811 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 458817011812 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 458817011813 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 458817011814 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 458817011815 binding surface 458817011816 TPR motif; other site 458817011817 Cytochrome c; Region: Cytochrom_C; cl11414 458817011818 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 458817011819 CcmA, the ATP-binding component of the bacterial CcmAB transporter. The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE...; Region: ABC_CcmA_heme_exporter; cd03231 458817011820 Walker A/P-loop; other site 458817011821 ATP binding site [chemical binding]; other site 458817011822 Q-loop/lid; other site 458817011823 ABC transporter signature motif; other site 458817011824 Walker B; other site 458817011825 D-loop; other site 458817011826 H-loop/switch region; other site 458817011827 CcmB protein; Region: CcmB; cl01016 458817011828 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 458817011829 Heme exporter protein D (CcmD); Region: CcmD; cl11475 458817011830 CcmE; Region: CcmE; cl00994 458817011831 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 458817011832 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 458817011833 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 458817011834 alphaNTD homodimer interface [polypeptide binding]; other site 458817011835 alphaNTD - beta interaction site [polypeptide binding]; other site 458817011836 alphaNTD - beta' interaction site [polypeptide binding]; other site 458817011837 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 458817011838 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 458817011839 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 458817011840 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 458817011841 RNA binding surface [nucleotide binding]; other site 458817011842 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 458817011843 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 458817011844 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 458817011845 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 458817011846 SecY translocase; Region: SecY; pfam00344 458817011847 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 458817011848 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 458817011849 23S rRNA binding site [nucleotide binding]; other site 458817011850 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 458817011851 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 458817011852 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 458817011853 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 458817011854 5S rRNA interface [nucleotide binding]; other site 458817011855 L5 interface [polypeptide binding]; other site 458817011856 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 458817011857 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 458817011858 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 458817011859 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 458817011860 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 458817011861 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 458817011862 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 458817011863 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 458817011864 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 458817011865 KOW motif; Region: KOW; cl00354 458817011866 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 458817011867 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 458817011868 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 458817011869 23S rRNA interface [nucleotide binding]; other site 458817011870 putative translocon interaction site; other site 458817011871 signal recognition particle (SRP54) interaction site; other site 458817011872 L23 interface [polypeptide binding]; other site 458817011873 trigger factor interaction site; other site 458817011874 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 458817011875 23S rRNA interface [nucleotide binding]; other site 458817011876 5S rRNA interface [nucleotide binding]; other site 458817011877 putative antibiotic binding site [chemical binding]; other site 458817011878 L25 interface [polypeptide binding]; other site 458817011879 L27 interface [polypeptide binding]; other site 458817011880 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 458817011881 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 458817011882 G-X-X-G motif; other site 458817011883 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 458817011884 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 458817011885 putative translocon binding site; other site 458817011886 protein-rRNA interface [nucleotide binding]; other site 458817011887 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 458817011888 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 458817011889 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 458817011890 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 458817011891 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 458817011892 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 458817011893 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 458817011894 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 458817011895 elongation factor Tu; Reviewed; Region: PRK00049 458817011896 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 458817011897 G1 box; other site 458817011898 GEF interaction site [polypeptide binding]; other site 458817011899 GTP/Mg2+ binding site [chemical binding]; other site 458817011900 Switch I region; other site 458817011901 G2 box; other site 458817011902 G3 box; other site 458817011903 Switch II region; other site 458817011904 G4 box; other site 458817011905 G5 box; other site 458817011906 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 458817011907 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 458817011908 Antibiotic Binding Site [chemical binding]; other site 458817011909 elongation factor G; Reviewed; Region: PRK00007 458817011910 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 458817011911 G1 box; other site 458817011912 putative GEF interaction site [polypeptide binding]; other site 458817011913 GTP/Mg2+ binding site [chemical binding]; other site 458817011914 Switch I region; other site 458817011915 G2 box; other site 458817011916 G3 box; other site 458817011917 Switch II region; other site 458817011918 G4 box; other site 458817011919 G5 box; other site 458817011920 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 458817011921 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 458817011922 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 458817011923 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 458817011924 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 458817011925 S17 interaction site [polypeptide binding]; other site 458817011926 S8 interaction site; other site 458817011927 16S rRNA interaction site [nucleotide binding]; other site 458817011928 streptomycin interaction site [chemical binding]; other site 458817011929 23S rRNA interaction site [nucleotide binding]; other site 458817011930 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 458817011931 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 458817011932 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 458817011933 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 458817011934 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 458817011935 DNA-directed RNA polymerase, beta'' subunit; Region: rpoC2_cyan; TIGR02388 458817011936 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 458817011937 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 458817011938 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 458817011939 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 458817011940 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 458817011941 DNA binding site [nucleotide binding] 458817011942 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 458817011943 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 458817011944 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 458817011945 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 458817011946 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 458817011947 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 458817011948 RPB11 interaction site [polypeptide binding]; other site 458817011949 RPB12 interaction site [polypeptide binding]; other site 458817011950 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 458817011951 RPB3 interaction site [polypeptide binding]; other site 458817011952 RPB1 interaction site [polypeptide binding]; other site 458817011953 RPB11 interaction site [polypeptide binding]; other site 458817011954 RPB10 interaction site [polypeptide binding]; other site 458817011955 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 458817011956 core dimer interface [polypeptide binding]; other site 458817011957 peripheral dimer interface [polypeptide binding]; other site 458817011958 L10 interface [polypeptide binding]; other site 458817011959 L11 interface [polypeptide binding]; other site 458817011960 putative EF-Tu interaction site [polypeptide binding]; other site 458817011961 putative EF-G interaction site [polypeptide binding]; other site 458817011962 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 458817011963 23S rRNA interface [nucleotide binding]; other site 458817011964 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 458817011965 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 458817011966 mRNA/rRNA interface [nucleotide binding]; other site 458817011967 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 458817011968 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 458817011969 23S rRNA interface [nucleotide binding]; other site 458817011970 L7/L12 interface [polypeptide binding]; other site 458817011971 putative thiostrepton binding site; other site 458817011972 L25 interface [polypeptide binding]; other site 458817011973 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 458817011974 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 458817011975 putative homodimer interface [polypeptide binding]; other site 458817011976 KOW motif; Region: KOW; cl00354 458817011977 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 458817011978 elongation factor Tu; Reviewed; Region: PRK00049 458817011979 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 458817011980 G1 box; other site 458817011981 GEF interaction site [polypeptide binding]; other site 458817011982 GTP/Mg2+ binding site [chemical binding]; other site 458817011983 Switch I region; other site 458817011984 G2 box; other site 458817011985 G3 box; other site 458817011986 Switch II region; other site 458817011987 G4 box; other site 458817011988 G5 box; other site 458817011989 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 458817011990 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 458817011991 Antibiotic Binding Site [chemical binding]; other site 458817011992 pantothenate kinase; Provisional; Region: PRK05439 458817011993 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in...; Region: PanK; cd02025 458817011994 ATP-binding site [chemical binding]; other site 458817011995 CoA-binding site [chemical binding]; other site 458817011996 Mg2+-binding site [ion binding]; other site 458817011997 Helix-turn-helix domains; Region: HTH; cl00088 458817011998 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 458817011999 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 458817012000 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 458817012001 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 458817012002 FAD binding domain; Region: FAD_binding_4; pfam01565 458817012003 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 458817012004 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 458817012005 RNA/DNA binding site [nucleotide binding]; other site 458817012006 RRM dimerization site [polypeptide binding]; other site 458817012007 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 458817012008 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; cl15754 458817012009 tRNA (uracil-5-)-methyltransferase; Region: trmA_only; TIGR02143 458817012010 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 458817012011 Helix-turn-helix domains; Region: HTH; cl00088 458817012012 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 458817012013 Di-iron ligands [ion binding]; other site 458817012014 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 458817012015 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 458817012016 selenophosphate synthetase; Provisional; Region: PRK00943 458817012017 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 458817012018 dimerization interface [polypeptide binding]; other site 458817012019 putative ATP binding site [chemical binding]; other site 458817012020 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 458817012021 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 458817012022 active site residue [active] 458817012023 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 458817012024 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 458817012025 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458817012026 Coenzyme A binding pocket [chemical binding]; other site 458817012027 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 458817012028 active site 458817012029 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 458817012030 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 458817012031 dimer interface [polypeptide binding]; other site 458817012032 ADP-ribose binding site [chemical binding]; other site 458817012033 active site 458817012034 nudix motif; other site 458817012035 metal binding site [ion binding]; metal-binding site 458817012036 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 458817012037 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 458817012038 motif II; other site 458817012039 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 458817012040 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 458817012041 general secretion pathway protein L; Region: typeII_sec_gspL; TIGR01709 458817012042 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 458817012043 GspL periplasmic domain; Region: GspL_C; cl14909 458817012044 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 458817012045 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 458817012046 general secretion pathway protein J; Region: gspJ; TIGR01711 458817012047 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 458817012048 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 458817012049 general secretion pathway protein I; Region: gspI; TIGR01707 458817012050 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 458817012051 general secretion pathway protein H; Region: typeII_sec_gspH; TIGR01708 458817012052 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 458817012053 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 458817012054 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 458817012055 general secretion pathway protein F; Region: GspF; TIGR02120 458817012056 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 458817012057 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 458817012058 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 458817012059 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 458817012060 Walker A motif; other site 458817012061 ATP binding site [chemical binding]; other site 458817012062 Walker B motif; other site 458817012063 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 458817012064 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 458817012065 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 458817012066 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 458817012067 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 458817012068 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 458817012069 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 458817012070 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 458817012071 RNA binding surface [nucleotide binding]; other site 458817012072 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 458817012073 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 458817012074 dimerization interface [polypeptide binding]; other site 458817012075 domain crossover interface; other site 458817012076 redox-dependent activation switch; other site 458817012077 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 458817012078 active site 458817012079 substrate-binding site [chemical binding]; other site 458817012080 metal-binding site [ion binding] 458817012081 ATP binding site [chemical binding]; other site 458817012082 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 458817012083 non-specific DNA binding site [nucleotide binding]; other site 458817012084 salt bridge; other site 458817012085 sequence-specific DNA binding site [nucleotide binding]; other site 458817012086 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_4; cd06241 458817012087 putative active site [active] 458817012088 Zn binding site [ion binding]; other site 458817012089 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 458817012090 S-adenosylmethionine binding site [chemical binding]; other site 458817012091 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 458817012092 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 458817012093 Catalytic site [active] 458817012094 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 458817012095 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 458817012096 GIY-YIG motif/motif A; other site 458817012097 putative active site [active] 458817012098 putative metal binding site [ion binding]; other site 458817012099 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 458817012100 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458817012101 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 458817012102 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 458817012103 Nitrate and nitrite sensing; Region: NIT; pfam08376 458817012104 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 458817012105 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 458817012106 PAS domain; Region: PAS_9; pfam13426 458817012107 putative active site [active] 458817012108 heme pocket [chemical binding]; other site 458817012109 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817012110 metal binding site [ion binding]; metal-binding site 458817012111 active site 458817012112 I-site; other site 458817012113 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 458817012114 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 458817012115 Ferritin-like domain; Region: Ferritin; pfam00210 458817012116 ferroxidase diiron center [ion binding]; other site 458817012117 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 458817012118 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 458817012119 dimer interface [polypeptide binding]; other site 458817012120 putative functional site; other site 458817012121 putative MPT binding site; other site 458817012122 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 458817012123 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 458817012124 ATP binding site [chemical binding]; other site 458817012125 substrate interface [chemical binding]; other site 458817012126 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 458817012127 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 458817012128 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 458817012129 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 458817012130 tetramer interface [polypeptide binding]; other site 458817012131 heme binding pocket [chemical binding]; other site 458817012132 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 458817012133 Domain of unknown function (DUF333); Region: DUF333; pfam03891 458817012134 Domain of unknown function (DUF333); Region: DUF333; pfam03891 458817012135 Domain of unknown function (DUF333); Region: DUF333; pfam03891 458817012136 Domain of unknown function (DUF333); Region: DUF333; pfam03891 458817012137 Domain of unknown function (DUF333); Region: DUF333; pfam03891 458817012138 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 458817012139 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 458817012140 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 458817012141 DNA binding residues [nucleotide binding] 458817012142 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 458817012143 Protein of unknown function (DUF692); Region: DUF692; cl01263 458817012144 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 458817012145 Sodium/glutamate symporter; Region: Glt_symporter; pfam03616 458817012146 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 458817012147 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 458817012148 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 458817012149 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 458817012150 putative ADP-binding pocket [chemical binding]; other site 458817012151 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 458817012152 putative metal binding site; other site 458817012153 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 458817012154 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 458817012155 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 458817012156 active site 458817012157 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 458817012158 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 458817012159 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 458817012160 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 458817012161 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 458817012162 putative ADP-binding pocket [chemical binding]; other site 458817012163 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 458817012164 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 458817012165 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 458817012166 putative active site [active] 458817012167 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 458817012168 ATP binding site [chemical binding]; other site 458817012169 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 458817012170 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 458817012171 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 458817012172 Helix-turn-helix domains; Region: HTH; cl00088 458817012173 Bacterial transcriptional repressor; Region: TetR; pfam13972 458817012174 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 458817012175 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 458817012176 substrate-cofactor binding pocket; other site 458817012177 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817012178 catalytic residue [active] 458817012179 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 458817012180 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817012181 NAD(P) binding site [chemical binding]; other site 458817012182 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 458817012183 active site residue [active] 458817012184 intramembrane serine protease GlpG; Provisional; Region: PRK10907 458817012185 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 458817012186 Rhomboid family; Region: Rhomboid; cl11446 458817012187 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 458817012188 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 458817012189 conserved cys residue [active] 458817012190 DNA polymerase I; Provisional; Region: PRK05755 458817012191 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 458817012192 active site 458817012193 metal binding site 1 [ion binding]; metal-binding site 458817012194 putative 5' ssDNA interaction site; other site 458817012195 metal binding site 3; metal-binding site 458817012196 metal binding site 2 [ion binding]; metal-binding site 458817012197 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 458817012198 putative DNA binding site [nucleotide binding]; other site 458817012199 putative metal binding site [ion binding]; other site 458817012200 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 458817012201 active site 458817012202 catalytic site [active] 458817012203 substrate binding site [chemical binding]; other site 458817012204 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 458817012205 active site 458817012206 DNA binding site [nucleotide binding] 458817012207 catalytic site [active] 458817012208 Predicted GTPase [General function prediction only]; Region: COG0218 458817012209 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 458817012210 G1 box; other site 458817012211 GTP/Mg2+ binding site [chemical binding]; other site 458817012212 Switch I region; other site 458817012213 G2 box; other site 458817012214 G3 box; other site 458817012215 Switch II region; other site 458817012216 G4 box; other site 458817012217 G5 box; other site 458817012218 Cytochrome c; Region: Cytochrom_C; cl11414 458817012219 Cytochrome c; Region: Cytochrom_C; cl11414 458817012220 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817012221 Der GTPase activator (YihI); Region: YihI; cl01172 458817012222 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 458817012223 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 458817012224 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 458817012225 FeS/SAM binding site; other site 458817012226 HemN C-terminal domain; Region: HemN_C; pfam06969 458817012227 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 458817012228 lysophospholipase L2; Provisional; Region: PRK10749 458817012229 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458817012230 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 458817012231 FHIPEP family; Region: FHIPEP; pfam00771 458817012232 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 458817012233 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 458817012234 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 458817012235 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 458817012236 FliP family; Region: FliP; cl00593 458817012237 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 458817012238 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 458817012239 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 458817012240 ligand binding site [chemical binding]; other site 458817012241 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 458817012242 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 458817012243 Walker A motif; other site 458817012244 ATP binding site [chemical binding]; other site 458817012245 Walker B motif; other site 458817012246 arginine finger; other site 458817012247 Helix-turn-helix domains; Region: HTH; cl00088 458817012248 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 458817012249 flagellar MS-ring protein; Reviewed; Region: fliF; PRK07193 458817012250 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 458817012251 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 458817012252 flagellar motor switch protein G; Reviewed; Region: fliG; PRK07194 458817012253 FliG C-terminal domain; Region: FliG_C; pfam01706 458817012254 flagellar assembly protein H; Provisional; Region: fliH; PRK13386 458817012255 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 458817012256 Flagellar assembly protein FliH; Region: FliH; pfam02108 458817012257 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 458817012258 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817012259 Walker A motif; other site 458817012260 ATP binding site [chemical binding]; other site 458817012261 Walker B motif; other site 458817012262 FlgN protein; Region: FlgN; cl09176 458817012263 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 458817012264 SAF domain; Region: SAF; cl00555 458817012265 SAF-like; Region: SAF_2; pfam13144 458817012266 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 458817012267 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 458817012268 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK06802 458817012269 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 458817012270 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 458817012271 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 458817012272 FlgD Ig-like domain; Region: FlgD_ig; cl15790 458817012273 flagellar hook protein FlgE; Validated; Region: flgE; PRK06803 458817012274 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 458817012275 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 458817012276 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 458817012277 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 458817012278 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 458817012279 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 458817012280 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 458817012281 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 458817012282 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 458817012283 Flagellar L-ring protein; Region: FlgH; cl00905 458817012284 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 458817012285 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 458817012286 Rod binding protein; Region: Rod-binding; cl01626 458817012287 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07191 458817012288 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 458817012289 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK07192 458817012290 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 458817012291 flagellin; Provisional; Region: PRK12802 458817012292 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 458817012293 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 458817012294 flagellar capping protein; Reviewed; Region: fliD; PRK08032 458817012295 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 458817012296 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 458817012297 Flagellar protein FliS; Region: FliS; cl00654 458817012298 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 458817012299 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 458817012300 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 458817012301 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 458817012302 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 458817012303 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 458817012304 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 458817012305 DNA binding residues [nucleotide binding] 458817012306 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 458817012307 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 458817012308 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 458817012309 hypothetical protein; Validated; Region: PRK06778 458817012310 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 458817012311 ligand binding site [chemical binding]; other site 458817012312 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 458817012313 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 458817012314 4Fe-4S binding domain; Region: Fer4_5; pfam12801 458817012315 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 458817012316 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 458817012317 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 458817012318 substrate binding site [chemical binding]; other site 458817012319 oxyanion hole (OAH) forming residues; other site 458817012320 trimer interface [polypeptide binding]; other site 458817012321 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 458817012322 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 458817012323 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 458817012324 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 458817012325 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 458817012326 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 458817012327 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 458817012328 dimer interface [polypeptide binding]; other site 458817012329 conserved gate region; other site 458817012330 putative PBP binding loops; other site 458817012331 ABC-ATPase subunit interface; other site 458817012332 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 458817012333 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 458817012334 dimer interface [polypeptide binding]; other site 458817012335 conserved gate region; other site 458817012336 putative PBP binding loops; other site 458817012337 ABC-ATPase subunit interface; other site 458817012338 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14253 458817012339 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 458817012340 Walker A/P-loop; other site 458817012341 ATP binding site [chemical binding]; other site 458817012342 Q-loop/lid; other site 458817012343 ABC transporter signature motif; other site 458817012344 Walker B; other site 458817012345 D-loop; other site 458817012346 H-loop/switch region; other site 458817012347 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 458817012348 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 458817012349 active site 458817012350 Uncharacterized protein family (UPF0261); Region: UPF0261; cl02262 458817012351 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 458817012352 DNA binding residues [nucleotide binding] 458817012353 dimerization interface [polypeptide binding]; other site 458817012354 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 458817012355 30S subunit binding site; other site 458817012356 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 458817012357 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 458817012358 glutaminase active site [active] 458817012359 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 458817012360 dimer interface [polypeptide binding]; other site 458817012361 active site 458817012362 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 458817012363 dimer interface [polypeptide binding]; other site 458817012364 active site 458817012365 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 458817012366 Helix-turn-helix domains; Region: HTH; cl00088 458817012367 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 458817012368 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 458817012369 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 458817012370 N-terminal plug; other site 458817012371 ligand-binding site [chemical binding]; other site 458817012372 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 458817012373 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 458817012374 Substrate binding site; other site 458817012375 Mg++ binding site; other site 458817012376 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 458817012377 active site 458817012378 substrate binding site [chemical binding]; other site 458817012379 CoA binding site [chemical binding]; other site 458817012380 DsrE/DsrF-like family; Region: DrsE; cl00672 458817012381 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 458817012382 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 458817012383 FtsX-like permease family; Region: FtsX; cl15850 458817012384 FtsX-like permease family; Region: FtsX; cl15850 458817012385 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 458817012386 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 458817012387 Walker A/P-loop; other site 458817012388 ATP binding site [chemical binding]; other site 458817012389 Q-loop/lid; other site 458817012390 ABC transporter signature motif; other site 458817012391 Walker B; other site 458817012392 D-loop; other site 458817012393 H-loop/switch region; other site 458817012394 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817012395 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817012396 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 458817012397 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 458817012398 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 458817012399 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 458817012400 alpha subunit interaction interface [polypeptide binding]; other site 458817012401 Walker A motif; other site 458817012402 ATP binding site [chemical binding]; other site 458817012403 Walker B motif; other site 458817012404 inhibitor binding site; inhibition site 458817012405 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 458817012406 ATP synthase; Region: ATP-synt; cl00365 458817012407 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 458817012408 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 458817012409 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 458817012410 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 458817012411 beta subunit interaction interface [polypeptide binding]; other site 458817012412 Walker A motif; other site 458817012413 ATP binding site [chemical binding]; other site 458817012414 Walker B motif; other site 458817012415 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 458817012416 Plant ATP synthase F0; Region: YMF19; cl07975 458817012417 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 458817012418 Plant ATP synthase F0; Region: YMF19; cl07975 458817012419 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 458817012420 ATP synthase subunit C; Region: ATP-synt_C; cl00466 458817012421 ATP synthase A chain; Region: ATP-synt_A; cl00413 458817012422 ATP synthase I chain; Region: ATP_synt_I; cl09170 458817012423 ParB-like partition proteins; Region: parB_part; TIGR00180 458817012424 ParB-like nuclease domain; Region: ParBc; cl02129 458817012425 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 458817012426 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 458817012427 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 458817012428 S-adenosylmethionine binding site [chemical binding]; other site 458817012429 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 458817012430 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817012431 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817012432 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 458817012433 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 458817012434 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 458817012435 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 458817012436 active site 458817012437 Protein of unknown function (DUF1186); Region: DUF1186; pfam06685 458817012438 hypothetical protein; Provisional; Region: PRK01617 458817012439 SEC-C motif; Region: SEC-C; pfam02810 458817012440 LysE type translocator; Region: LysE; cl00565 458817012441 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 458817012442 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 458817012443 trmE is a tRNA modification GTPase; Region: trmE; cd04164 458817012444 G1 box; other site 458817012445 GTP/Mg2+ binding site [chemical binding]; other site 458817012446 Switch I region; other site 458817012447 G2 box; other site 458817012448 Switch II region; other site 458817012449 G3 box; other site 458817012450 G4 box; other site 458817012451 G5 box; other site 458817012452 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 458817012453 membrane protein insertase; Provisional; Region: PRK01318 458817012454 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 458817012455 Haemolytic domain; Region: Haemolytic; cl00506 458817012456 Ribonuclease P; Region: Ribonuclease_P; cl00457 458817012457 Ribosomal protein L34; Region: Ribosomal_L34; cl00370